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Rossi F, Duchaine C, Tignat-Perrier R, Joly M, Larose C, Dommergue A, Turgeon N, Veillette M, Sellegri K, Baray JL, Amato P. Temporal variations of antimicrobial resistance genes in aerosols: A one-year monitoring at the puy de Dôme summit (Central France). THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 912:169567. [PMID: 38145686 DOI: 10.1016/j.scitotenv.2023.169567] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2023] [Revised: 12/18/2023] [Accepted: 12/19/2023] [Indexed: 12/27/2023]
Abstract
The recent characterization of antibiotic resistance genes (ARGs) in clouds evidenced that the atmosphere actively partakes in the global spreading of antibiotic resistance worldwide. Indeed, the outdoor atmosphere continuously receives large quantities of particles of biological origins, emitted from both anthropogenic or natural sources at the near Earth's surface. Nonetheless, our understanding of the composition of the atmospheric resistome, especially at mid-altitude (i.e. above 1000 m a.s.l.), remains largely limited. The atmosphere is vast and highly dynamic, so that the diversity and abundance of ARGs are expected to fluctuate both spatially and temporally. In this work, the abundance and diversity of ARGs were assessed in atmospheric aerosol samples collected weekly between July 2016 and August 2017 at the mountain site of puy de Dôme (1465 m a.s.l., central France). Our results evidence the presence of 33 different subtypes of ARGs in atmospheric aerosols, out of 34 assessed, whose total concentration fluctuated seasonally from 59 to 1.1 × 105 copies m-3 of air. These were heavily dominated by genes from the quinolone resistance family, notably the qepA gene encoding efflux pump mechanisms, which represented >95 % of total ARGs concentration. Its abundance positively correlated with that of bacteria affiliated with the genera Kineococcus, Neorhizobium, Devosia or Massilia, ubiquitous in soils. This, along with the high abundance of Sphingomonas species, points toward a large contribution of natural sources to the airborne ARGs. Nonetheless, the increased contribution of macrolide resistance (notably the erm35 gene) during winter suggests a sporadic diffusion of ARGs from human activities. Our observations depict the atmosphere as an important vector of ARGs from terrestrial sources. Therefore, monitoring ARGs in airborne microorganisms appears necessary to fully understand the dynamics of antimicrobial resistances in the environment and mitigate the threats they may represent.
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Affiliation(s)
- Florent Rossi
- Département de biochimie, de microbiologie et de bio-informatique, Faculté́ des sciences et de génie, Université́ Laval, Québec, Canada; Centre de recherche de l'institut de cardiologie et de pneumologie de Québec, Québec, Canada
| | - Caroline Duchaine
- Département de biochimie, de microbiologie et de bio-informatique, Faculté́ des sciences et de génie, Université́ Laval, Québec, Canada; Centre de recherche de l'institut de cardiologie et de pneumologie de Québec, Québec, Canada; Canada Research Chair on Bioaerosols, Canada.
| | - Romie Tignat-Perrier
- Laboratoire Ampère, École Centrale de Lyon, CNRS, Université de Lyon, Ecully, France; Institut des Géosciences de l'Environnement, Université Grenoble Alpes, CNRS, IRD, INRAE, Grenoble INP, Grenoble, France
| | - Muriel Joly
- Université Clermont Auvergne, CNRS, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Catherine Larose
- Laboratoire Ampère, École Centrale de Lyon, CNRS, Université de Lyon, Ecully, France
| | - Aurélien Dommergue
- Institut des Géosciences de l'Environnement, Université Grenoble Alpes, CNRS, IRD, INRAE, Grenoble INP, Grenoble, France
| | - Nathalie Turgeon
- Département de biochimie, de microbiologie et de bio-informatique, Faculté́ des sciences et de génie, Université́ Laval, Québec, Canada; Centre de recherche de l'institut de cardiologie et de pneumologie de Québec, Québec, Canada
| | - Marc Veillette
- Département de biochimie, de microbiologie et de bio-informatique, Faculté́ des sciences et de génie, Université́ Laval, Québec, Canada; Centre de recherche de l'institut de cardiologie et de pneumologie de Québec, Québec, Canada
| | - Karine Sellegri
- Université Clermont Auvergne, CNRS, Laboratoire de Météorologie physique, UMR 6016, Clermont-Ferrand, France
| | - Jean-Luc Baray
- Université Clermont Auvergne, CNRS, Observatoire de physique du Globe de Clermont-Ferrand, UAR 833, Clermont-Ferrand, France; Université Clermont Auvergne, CNRS, Laboratoire de Météorologie physique, UMR 6016, Clermont-Ferrand, France
| | - Pierre Amato
- Université Clermont Auvergne, CNRS, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
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Noirmain F, Baray JL, Deguillaume L, Van Baelen J, Latour D. Exploring the size-dependent dynamics of photosynthetic cells in rainwater: The influence of atmospheric variables and rain characteristics. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 906:167746. [PMID: 37827319 DOI: 10.1016/j.scitotenv.2023.167746] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2023] [Revised: 10/09/2023] [Accepted: 10/09/2023] [Indexed: 10/14/2023]
Abstract
The presence of microalgae in the atmosphere raises health and environmental concerns. Despite recent scientific advances, our knowledge of the origins and dynamics of photosynthetic cells in relation to atmospheric processes is limited due to a lack of empirical data. To address this gap, we conducted a one-year survey, collecting and analyzing rainwater samples. This study proposes to investigate the temporal dynamics of photosynthetic cells based on their size in combination with a unique dataset of variables of interest: type of rain and its characteristics, local meteorology, concentrations of inorganic chemical species, and long-range air mass transport. The analysis of the biochemical composition of rainwater, along with its correlation with the origin of air masses using ions as tracers, provides evidence of the long-range transport of photosynthetic cells. Additionally, our study reveals distinct removal mechanisms from the atmosphere for photosynthetic cells depending on their size. Our results suggest that convective events with high-intensity rainfall led to the efficient removal of medium-sized photosynthetic cells (4-15 μm) from the atmosphere. However, removal mechanisms for small (<4 μm) and large-sized cells (>15 μm) are not influenced by microphysical rainfall characteristics and seem to be governed by different atmospheric processes: dry deposition is proposed to be a significant mechanism for the removal of large-sized photosynthetic cells, while small-sized cells detected in rain are correlated with the horizontal wind speed and duration of rainfall, particularly during stratiform events. This implies that the removal of photosynthetic cells from the atmosphere is strongly influenced by environmental variables, which are expected to vary in response to global change. Therefore, it is crucial to enhance the monitoring of photosynthetic cells in relation to atmospheric processes and investigate the potential impact of the dissemination of genetic material from distant sources on recipient ecosystems.
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Affiliation(s)
- Fanny Noirmain
- Université Clermont Auvergne, CNRS, Laboratoire Microorganismes: Genome, Environnement (LMGE), UMR6023, Clermont-Ferrand, France.
| | - Jean-Luc Baray
- Université Clermont Auvergne, CNRS, Laboratoire de Météorologie Physique (LaMP), UMR6016, Clermont-Ferrand, France; Université Clermont Auvergne, CNRS, Observatoire de Physique du Globe de Clermont Ferrand (OPGC), UAR833, Clermont-Ferrand, France
| | - Laurent Deguillaume
- Université Clermont Auvergne, CNRS, Laboratoire de Météorologie Physique (LaMP), UMR6016, Clermont-Ferrand, France; Université Clermont Auvergne, CNRS, Observatoire de Physique du Globe de Clermont Ferrand (OPGC), UAR833, Clermont-Ferrand, France
| | - Joël Van Baelen
- Université de La Réunion, CNRS, Météo-France, Laboratoire de l'Atmosphère et des Cyclones (LACy), UMR8105, St Denis de la Réunion, France
| | - Delphine Latour
- Université Clermont Auvergne, CNRS, Laboratoire Microorganismes: Genome, Environnement (LMGE), UMR6023, Clermont-Ferrand, France
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Rossi F, Péguilhan R, Turgeon N, Veillette M, Baray JL, Deguillaume L, Amato P, Duchaine C. Quantification of antibiotic resistance genes (ARGs) in clouds at a mountain site (puy de Dôme, central France). THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 865:161264. [PMID: 36587700 DOI: 10.1016/j.scitotenv.2022.161264] [Citation(s) in RCA: 12] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/04/2022] [Revised: 12/19/2022] [Accepted: 12/25/2022] [Indexed: 06/17/2023]
Abstract
Antibiotic resistance in bacteria is becoming a major sanitary concern worldwide. The extensive use of large quantities of antibiotics to sustain human activity has led to the rapid acquisition and maintenance of antibiotic resistant genes (ARGs) in bacteria and to their spread into the environment. Eventually, these can be disseminated over long distances by atmospheric transport. Here, we assessed the presence of ARGs in clouds as an indicator of long-distance travel potential of antibiotic resistance in the atmosphere. We hypothesized that a variety of ARGs can reach the altitude of clouds mainly located within the free troposphere. Once incorporated in the atmosphere, they are efficiently transported and their respective concentrations should differ depending on the sources and the geographical origin of the air masses. We deployed high-flow rate impingers and collected twelve clouds between September 2019 and October 2021 at the meteorological station of the puy de Dôme summit (1465 m a.s.l., France). Total airborne bacteria concentration was assessed by flow cytometry, and ARGs subtypes of the main families of antibiotic resistance (quinolone, sulfonamide, tetracycline; glycopeptide, aminoglycoside, β-lactamase, macrolide) including one mobile genetic element (transposase) were quantified by qPCR. Our results indicate the presence of 29 different ARGs' subtypes at concentrations ranging from 1.01 × 103 to 1.61 × 104 copies m-3 of air. Clear distinctions could be observed between clouds in air masses transported over marine areas (Atlantic Ocean) and clouds influenced by continental surfaces. Specifically, quinolones (mostly qepA) resistance genes were prevalent in marine clouds (54 % of the total ARGs on average), whereas higher contributions of sulfonamide, tetracycline; glycopeptide, β-lactamase and macrolide were found in continental clouds. This study constitutes the first evidence for the presence of microbial ARGs in clouds at concentrations comparable to other natural environments. This highlights the atmosphere as routes for the dissemination of ARGs at large scale.
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Affiliation(s)
- Florent Rossi
- Centre de Recherche de l'Institut Universitaire de Cardiologie et de Pneumologie de Québec, Université Laval, Quebec City, Quebec, Canada; Département de Biochimie, de Microbiologie et de Bio-informatique, Faculté des Sciences et de Génie, Université Laval, Quebec City, Quebec, Canada
| | - Raphaëlle Péguilhan
- Université Clermont Auvergne, CNRS, SIGMA Clermont, ICCF, F-63000 Clermont-Ferrand, France
| | - Nathalie Turgeon
- Centre de Recherche de l'Institut Universitaire de Cardiologie et de Pneumologie de Québec, Université Laval, Quebec City, Quebec, Canada; Département de Biochimie, de Microbiologie et de Bio-informatique, Faculté des Sciences et de Génie, Université Laval, Quebec City, Quebec, Canada
| | - Marc Veillette
- Centre de Recherche de l'Institut Universitaire de Cardiologie et de Pneumologie de Québec, Université Laval, Quebec City, Quebec, Canada; Département de Biochimie, de Microbiologie et de Bio-informatique, Faculté des Sciences et de Génie, Université Laval, Quebec City, Quebec, Canada
| | - Jean-Luc Baray
- Université Clermont Auvergne, CNRS, Observatoire de Physique du Globe de Clermont-Ferrand, UAR 833, F-63000 Clermont-Ferrand, France; Université Clermont Auvergne, CNRS, Laboratoire de Météorologie Physique, UMR 6016, F-63000 Clermont-Ferrand, France
| | - Laurent Deguillaume
- Université Clermont Auvergne, CNRS, Observatoire de Physique du Globe de Clermont-Ferrand, UAR 833, F-63000 Clermont-Ferrand, France; Université Clermont Auvergne, CNRS, Laboratoire de Météorologie Physique, UMR 6016, F-63000 Clermont-Ferrand, France
| | - Pierre Amato
- Université Clermont Auvergne, CNRS, SIGMA Clermont, ICCF, F-63000 Clermont-Ferrand, France
| | - Caroline Duchaine
- Centre de Recherche de l'Institut Universitaire de Cardiologie et de Pneumologie de Québec, Université Laval, Quebec City, Quebec, Canada; Département de Biochimie, de Microbiologie et de Bio-informatique, Faculté des Sciences et de Génie, Université Laval, Quebec City, Quebec, Canada.
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How Well Do We Handle the Sample Preparation, FT-ICR Mass Spectrometry Analysis, and Data Treatment of Atmospheric Waters? MOLECULES (BASEL, SWITZERLAND) 2022; 27:molecules27227796. [PMID: 36431897 PMCID: PMC9692371 DOI: 10.3390/molecules27227796] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/22/2022] [Revised: 11/01/2022] [Accepted: 11/07/2022] [Indexed: 11/16/2022]
Abstract
FT-ICR MS (Fourier-transform ion cyclotron resonance mass spectrometry) analysis has shown great potential to aid in the understanding of the extremely high molecular diversity of cloud water samples. The main goal of this work was to determine the differences in terms of formula assignment for analytical (i.e., measurement replicates) and experimental replicates of a given cloud water sample. The experimental replicates, obtained by solid phase extraction, were also compared to the results obtained for freeze-dried samples to evaluate whether the presence of salts interferes with the analysis. Two S/N ratios, generally adopted for atmospheric samples, were evaluated, and three different algorithms were used for assignment: DataAnalysis 5.3 (Bruker), Composer (Sierra Analytics), and MFAssignR (Chemical Advanced Resolution Methods Lab). In contrast to other works, we wanted to treat this comparison from the point of view of users, who usually must deal with a simple list of m/z ratios and intensity with limited access to the mass spectrum characteristics. The aim of this study was to establish a methodology for the treatment of atmospheric aqueous samples in light of the comparison of three different software programs, to enhance the possibility of data comparison within samples.
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González AG, Bianco A, Boutorh J, Cheize M, Mailhot G, Delort AM, Planquette H, Chaumerliac N, Deguillaume L, Sarthou G. Influence of strong iron-binding ligands on cloud water oxidant capacity. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 829:154642. [PMID: 35306063 DOI: 10.1016/j.scitotenv.2022.154642] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2021] [Revised: 03/09/2022] [Accepted: 03/14/2022] [Indexed: 06/14/2023]
Abstract
Iron (Fe) plays a dual role in atmospheric chemistry: it is involved in chemical and photochemical reactivity and serves as a micronutrient for microorganisms that have recently been shown to produce strong organic ligands. These ligands control the reactivity, mobility, solubility and speciation of Fe, which have a potential impact on Fe bioavailability and cloud water oxidant capacity. In this work, the concentrations of Fe-binding ligands and the conditional stability constants were experimentally measured for the first time by Competitive Ligand Exchange-Adsorptive Cathodic Stripping Voltammetry (CLE-ACSV) technique in cloud water samples collected at puy de Dôme (France). The conditional stability constants, which indicate the strength of the Fe-ligand complexes, are higher than those considered until now in cloud chemistry (mainly Fe-oxalate). To understand the effect of Fe complexation on cloud water reactivity, we used the CLEPS cloud chemistry model. According to the model results, we found that Fe complexation impacts the hydroxyl radical formation rate: contrary to our expectations, Fe complexation by natural organic ligands led to an increase in hydroxyl radical production. These findings have important impacts on cloud chemistry and the global iron cycle.
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Affiliation(s)
- Aridane G González
- Instituto de Oceanografía y Cambio Global, IOCAG, Universidad de Las Palmas de Gran Canaria, ULPGC, Spain; CNRS, Univ Brest, IRD, Ifremer, LEMAR, F-29280 Plouzane, France.
| | - Angelica Bianco
- Laboratoire de Météorologie Physique, UMR 6016, CNRS, Université Clermont Auvergne, 63178 Aubière, France.
| | - Julia Boutorh
- CNRS, Univ Brest, IRD, Ifremer, LEMAR, F-29280 Plouzane, France
| | - Marie Cheize
- CNRS, Univ Brest, IRD, Ifremer, LEMAR, F-29280 Plouzane, France
| | - Gilles Mailhot
- CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand, Université Clermont Auvergne, F-63000 Clermont-Ferrand, France
| | - Anne-Marie Delort
- CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand, Université Clermont Auvergne, F-63000 Clermont-Ferrand, France
| | | | - Nadine Chaumerliac
- Laboratoire de Météorologie Physique, UMR 6016, CNRS, Université Clermont Auvergne, 63178 Aubière, France
| | - Laurent Deguillaume
- Laboratoire de Météorologie Physique, UMR 6016, CNRS, Université Clermont Auvergne, 63178 Aubière, France; Observatoire de Physique du Globe de Clermont-Ferrand, UAR 833, CNRS, Université Clermont Auvergne, 63178 Aubière, France
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Péguilhan R, Besaury L, Rossi F, Enault F, Baray JL, Deguillaume L, Amato P. Rainfalls sprinkle cloud bacterial diversity while scavenging biomass. FEMS Microbiol Ecol 2021; 97:6420242. [PMID: 34734249 DOI: 10.1093/femsec/fiab144] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2021] [Accepted: 10/27/2021] [Indexed: 11/15/2022] Open
Abstract
Bacteria circulate in the atmosphere, through clouds and precipitation to surface ecosystems. Here, we conducted a coordinated study of bacteria assemblages in clouds and precipitation at two sites distant of ∼800 m in elevation in a rural vegetated area around puy de Dôme Mountain, France, and analysed them in regard to meteorological, chemical and air masses' history data. In both clouds and precipitation, bacteria generally associated with vegetation or soil dominated. Elevated ATP-to-cell ratio in clouds compared with precipitation suggested a higher proportion of viable cells and/or specific biological processes. The increase of bacterial cell concentration from clouds to precipitation indicated strong below-cloud scavenging. Using ions as tracers, we derive that 0.2 to 25.5% of the 1.1 × 107 to 6.6 × 108 bacteria cell/m2/h1 deposited with precipitation originated from the source clouds. Yet, the relative species richness decreased with the proportion of inputs from clouds, pointing them as sources of distant microbial diversity. Biodiversity profiles, thus, differed between clouds and precipitation in relation with distant/local influencing sources, and potentially with bacterial phenotypic traits. Notably Undibacterium, Bacillus and Staphylococcus were more represented in clouds, while epiphytic bacteria such as Massilia, Sphingomonas, Rhodococcus and Pseudomonas were enriched in precipitation.
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Affiliation(s)
- Raphaëlle Péguilhan
- Université Clermont Auvergne, CNRS, SIGMA Clermont , ICCF, F-63000 CLERMONT-FERRAND, France
| | - Ludovic Besaury
- Université Clermont Auvergne, CNRS, SIGMA Clermont , ICCF, F-63000 CLERMONT-FERRAND, France
| | - Florent Rossi
- Université Clermont Auvergne, CNRS, SIGMA Clermont , ICCF, F-63000 CLERMONT-FERRAND, France
| | - François Enault
- Université Clermont Auvergne, CNRS, Laboratoire Microorganismes: Genome et Environnement, F-63000 CLERMONT-FERRAND, France
| | - Jean-Luc Baray
- Université Clermont Auvergne, CNRS, Observatoire de Physique du Globe de Clermont-Ferrand , UMS 833, F-63000 CLERMONT-FERRAND, France.,Université Clermont Auvergne, CNRS, Laboratoire de Météorologie Physique , UMR 6016, F-63000 CLERMONT-FERRAND, France
| | - Laurent Deguillaume
- Université Clermont Auvergne, CNRS, Observatoire de Physique du Globe de Clermont-Ferrand , UMS 833, F-63000 CLERMONT-FERRAND, France.,Université Clermont Auvergne, CNRS, Laboratoire de Météorologie Physique , UMR 6016, F-63000 CLERMONT-FERRAND, France
| | - Pierre Amato
- Université Clermont Auvergne, CNRS, SIGMA Clermont , ICCF, F-63000 CLERMONT-FERRAND, France
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