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Dubreil E, Darney K, Delignette-Muller ML, Barranger A, Huet S, Hogeveen K, Léger T, Fessard V, Hégarat LL. Modeling HepaRG metabolome responses to pyrrolizidine alkaloid exposure for insight into points of departure and modes of action. JOURNAL OF HAZARDOUS MATERIALS 2024; 474:134721. [PMID: 38843629 DOI: 10.1016/j.jhazmat.2024.134721] [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: 01/29/2024] [Revised: 05/12/2024] [Accepted: 05/22/2024] [Indexed: 06/26/2024]
Abstract
The new challenges in toxicology demand novel and innovative in vitro approaches for deriving points of departure (PODs) and determining the mode of action (MOA) of chemicals. Therefore, the aim of this original study was to couple in vitro studies with untargeted metabolomics to model the concentration-response of extra- and intracellular metabolome data on human HepaRG cells treated for 48 h with three pyrrolizidine alkaloids (PAs): heliotrine, retrorsine and lasiocarpine. Modeling revealed that the three PAs induced various monotonic and, importantly, biphasic curves of metabolite content. Based on unannotated metabolites, the endometabolome was more sensitive than the exometabolome in terms of metabolomic effects, and benchmark concentrations (BMCs) confirmed that lasiocarpine was the most hepatotoxic PA. Regarding its MOA, impairment of lipid metabolism was highlighted at a very low BMC (first quartile, 0.003 µM). Moreover, results confirmed that lasiocarpine targets bile acids, as well as amino acid and steroid metabolisms. Analysis of the endometabolome, based on coupling concentration-response and PODs, gave encouraging results for ranking toxins according to their hepatotoxic effects. Therefore, this novel approach is a promising tool for next-generation risk assessment, readily applicable to a broad range of compounds and toxic endpoints.
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Affiliation(s)
- Estelle Dubreil
- ANSES, French Agency for Food, Environmental and Occupational Health & Safety, Fougères Laboratory, Toxicology of Contaminants Unit, 10 B rue Claude Bourgelat, 35306 Fougères, France.
| | - Keyvin Darney
- ANSES, French Agency for Food, Environmental and Occupational Health & Safety, Risk Assessment Department, 14 Rue Pierre et Marie Curie, 94701 Maisons-Alfort, France
| | - Marie-Laure Delignette-Muller
- University of Lyon 1, CNRS, VetAgro Sup, UMR 5558, Laboratoire de Biométrie et Biologie Evolutive, 69622 Villeurbanne, France
| | - Audrey Barranger
- ANSES, French Agency for Food, Environmental and Occupational Health & Safety, Fougères Laboratory, Toxicology of Contaminants Unit, 10 B rue Claude Bourgelat, 35306 Fougères, France
| | - Sylvie Huet
- ANSES, French Agency for Food, Environmental and Occupational Health & Safety, Fougères Laboratory, Toxicology of Contaminants Unit, 10 B rue Claude Bourgelat, 35306 Fougères, France
| | - Kevin Hogeveen
- ANSES, French Agency for Food, Environmental and Occupational Health & Safety, Fougères Laboratory, Toxicology of Contaminants Unit, 10 B rue Claude Bourgelat, 35306 Fougères, France
| | - Thibaut Léger
- ANSES, French Agency for Food, Environmental and Occupational Health & Safety, Fougères Laboratory, Toxicology of Contaminants Unit, 10 B rue Claude Bourgelat, 35306 Fougères, France
| | - Valérie Fessard
- ANSES, French Agency for Food, Environmental and Occupational Health & Safety, Fougères Laboratory, Toxicology of Contaminants Unit, 10 B rue Claude Bourgelat, 35306 Fougères, France
| | - Ludovic Le Hégarat
- ANSES, French Agency for Food, Environmental and Occupational Health & Safety, Fougères Laboratory, Toxicology of Contaminants Unit, 10 B rue Claude Bourgelat, 35306 Fougères, France
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Colas S, Marie B, Morin S, Milhe-Poutingon M, Foucault P, Chalvin S, Gelber C, Baldoni-Andrey P, Gurieff N, Fortin C, Le Faucheur S. New sensitive tools to characterize meta-metabolome response to short- and long-term cobalt exposure in dynamic river biofilm communities. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 927:171851. [PMID: 38518822 DOI: 10.1016/j.scitotenv.2024.171851] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2023] [Revised: 03/18/2024] [Accepted: 03/19/2024] [Indexed: 03/24/2024]
Abstract
Untargeted metabolomics is a non-a priori analysis of biomolecules that characterizes the metabolome variations induced by short- and long-term exposures to stressors. Even if the metabolite annotation remains lacunar due to database gaps, the global metabolomic fingerprint allows for trend analyses of dose-response curves for hundreds of cellular metabolites. Analysis of dose/time-response curve trends (biphasic or monotonic) of untargeted metabolomic features would thus allow the use of all the chemical signals obtained in order to determine stress levels (defense or damage) in organisms. To develop this approach in a context of time-dependent microbial community changes, mature river biofilms were exposed for 1 month to four cobalt (Co) concentrations (from background concentration to 1 × 10-6 M) in an open system of artificial streams. The meta-metabolomic response of biofilms was compared against a multitude of biological parameters (including bioaccumulation, biomass, chlorophyll a content, composition and structure of prokaryotic and eukaryotic communities) monitored at set exposure times (from 1 h to 28 d). Cobalt exposure induced extremely rapid responses of the meta-metabolome, with time range inducing defense responses (TRIDeR) of around 10 s, and time range inducing damage responses (TRIDaR) of several hours. Even in biofilms whose structure had been altered by Co bioaccumulation (reduced biomass, chlorophyll a contents and changes in the composition and diversity of prokaryotic and eukaryotic communities), concentration range inducing defense responses (CRIDeR) with similar initiation thresholds (1.41 ± 0.77 × 10-10 M Co2+ added in the exposure medium) were set up at the meta-metabolome level at every time point. In contrast, the concentration range inducing damage responses (CRIDaR) initiation thresholds increased by 10 times in long-term Co exposed biofilms. The present study demonstrates that defense and damage responses of biofilm meta-metabolome exposed to Co are rapidly and sustainably impacted, even within tolerant and resistant microbial communities.
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Affiliation(s)
- Simon Colas
- Universite de Pau et des Pays de l'Adour, E2S-UPPA, CNRS, IPREM, Pau, France.
| | - Benjamin Marie
- UMR 7245 CNRS/MNHN "Molécules de Communication et Adaptation des Micro-organismes", Muséum National d'Histoire Naturelle, Paris, France
| | | | | | - Pierre Foucault
- UMR 7245 CNRS/MNHN "Molécules de Communication et Adaptation des Micro-organismes", Muséum National d'Histoire Naturelle, Paris, France; UMR7618 iEES-Paris, Sorbonne Université, Paris, France
| | - Siann Chalvin
- Universite de Pau et des Pays de l'Adour, E2S-UPPA, CNRS, IPREM, Pau, France
| | | | | | | | - Claude Fortin
- Institut National de la Recherche Scientifique - Eau Terre Environnement, Québec, Canada
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Colas S, Marie B, Milhe-Poutingon M, Lot MC, Boullemant A, Fortin C, Le Faucheur S. Meta-metabolomic responses of river biofilms to cobalt exposure and use of dose-response model trends as an indicator of effects. JOURNAL OF HAZARDOUS MATERIALS 2024; 470:134099. [PMID: 38547754 DOI: 10.1016/j.jhazmat.2024.134099] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2023] [Revised: 03/18/2024] [Accepted: 03/19/2024] [Indexed: 04/25/2024]
Abstract
The response of the meta-metabolome is rarely used to characterize the effects of contaminants on a whole community. Here, the meta-metabolomic fingerprints of biofilms were examined after 1, 3 and 7 days of exposure to five concentrations of cobalt (from background concentration to 1 × 10-5 M) in aquatic microcosms. The untargeted metabolomic data were processed using the DRomics tool to build dose-response models and to calculate benchmark-doses. This approach made it possible to use 100% of the chemical signal instead of being limited to the very few annotated metabolites (7%). These benchmark-doses were further aggregated into an empirical cumulative density function. A trend analysis of the untargeted meta-metabolomic feature dose-response curves after 7 days of exposure suggested the presence of a concentration range inducing defense responses between 1.7 × 10-9 and 2.7 × 10-6 M, and of a concentration range inducing damage responses from 2.7 × 10-6 M and above. This distinction was in good agreement with changes in the other biological parameters studied (biomass and chlorophyll content). This study demonstrated that the molecular defense and damage responses can be related to contaminant concentrations and represents a promising approach for environmental risk assessment of metals.
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Affiliation(s)
- Simon Colas
- Universite de Pau et des Pays de l'Adour, E2S-UPPA, CNRS, IPREM, Pau, France.
| | - Benjamin Marie
- UMR 7245 CNRS/MNHN " Molécules de Communication et Adaptations des Micro-organismes ", Muséum National d'Histoire Naturelle, Paris, France
| | | | | | | | - Claude Fortin
- Institut National de la Recherche Scientifique - Eau Terre Environnement, Québec, Canada
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Narayanan M, Devarayan K, Verma M, Selvaraj M, Ghramh HA, Kandasamy S. Assessing the ecological impact of pesticides/herbicides on algal communities: A comprehensive review. AQUATIC TOXICOLOGY (AMSTERDAM, NETHERLANDS) 2024; 268:106851. [PMID: 38325057 DOI: 10.1016/j.aquatox.2024.106851] [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: 08/28/2023] [Revised: 01/12/2024] [Accepted: 01/25/2024] [Indexed: 02/09/2024]
Abstract
The escalating use of pesticides in agriculture for enhanced crop productivity threatens aquatic ecosystems, jeopardizing environmental integrity and human well-being. Pesticides infiltrate water bodies through runoff, chemical spills, and leachate, adversely affecting algae, vital primary producers in marine ecosystems. The repercussions cascade through higher trophic levels, underscoring the need for a comprehensive understanding of the interplay between pesticides, algae, and the broader ecosystem. Algae, susceptible to pesticides via spillage, runoff, and drift, experience disruptions in community structure and function, with certain species metabolizing and bioaccumulating these contaminants. The toxicological mechanisms vary based on the specific pesticide and algal species involved, particularly evident in herbicides' interference with photosynthetic activity in algae. Despite advancements, gaps persist in comprehending the precise toxic effects and mechanisms affecting algae and non-target species. This review consolidates information on the exposure and toxicity of diverse pesticides and herbicides to aquatic algae, elucidating underlying mechanisms. An emphasis is placed on the complex interactions between pesticides/herbicides, nutrient content, and their toxic effects on algae and microbial species. The variability in the harmful impact of a single pesticide across different algae species underscores the necessity for further research. A holistic approach considering these interactions is imperative to enhance predictions of pesticide effects in marine ecosystems. Continued research in this realm is crucial for a nuanced understanding of the repercussions of pesticides and herbicides on aquatic ecosystems, mainly algae.
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Affiliation(s)
- Mathiyazhagan Narayanan
- Center for Research and Innovation, Department of Biotechnology, Saveetha School of Engineering, Saveetha Institute of Medical and Technical Science, Saveetha University, Chennai 602 105, Tamil Nadu, India.
| | - Kesavan Devarayan
- Department of Basic Sciences, College of Fisheries Engineering, Tamil Nadu Dr. J. Jayalalithaa Fisheries University, Vettar River View Campus, Nagapattinam 611 002, India
| | - Monu Verma
- Water-Energy Nexus Laboratory, Department of Environmental Engineering, University of Seoul, Seoul 02504, South Korea; Department of Food Science and Technology, Graphic Era (Deemed to be University), Dehradun 248002, Uttarakhand, India
| | - Manickam Selvaraj
- Department of Chemistry, Faculty of Science, King Khalid University, Abha 61413, Saudi Arabia
| | - Hamed A Ghramh
- Research Centre for Advanced Materials Science (RCAMS), King Khalid University, PO Box 9004, Abha 61413, Saudi Arabia
| | - Sabariswaran Kandasamy
- Department of Biotechnology, PSGR Krishnammal College for Women, Peelamedu, Coimbatore 641004, India.
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Machuca-Sepúlveda J, Miranda J, Lefin N, Pedroso A, Beltrán JF, Farias JG. Current Status of Omics in Biological Quality Elements for Freshwater Biomonitoring. BIOLOGY 2023; 12:923. [PMID: 37508354 PMCID: PMC10376755 DOI: 10.3390/biology12070923] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/12/2023] [Revised: 06/01/2023] [Accepted: 06/02/2023] [Indexed: 07/30/2023]
Abstract
Freshwater ecosystems have been experiencing various forms of threats, mainly since the last century. The severity of this adverse scenario presents unprecedented challenges to human health, water supply, agriculture, forestry, ecological systems, and biodiversity, among other areas. Despite the progress made in various biomonitoring techniques tailored to specific countries and biotic communities, significant constraints exist, particularly in assessing and quantifying biodiversity and its interplay with detrimental factors. Incorporating modern techniques into biomonitoring methodologies presents a challenging topic with multiple perspectives and assertions. This review aims to present a comprehensive overview of the contemporary advancements in freshwater biomonitoring, specifically by utilizing omics methodologies such as genomics, metagenomics, transcriptomics, proteomics, metabolomics, and multi-omics. The present study aims to elucidate the rationale behind the imperative need for modernization in this field. This will be achieved by presenting case studies, examining the diverse range of organisms that have been studied, and evaluating the potential benefits and drawbacks associated with the utilization of these methodologies. The utilization of advanced high-throughput bioinformatics techniques represents a sophisticated approach that necessitates a significant departure from the conventional practices of contemporary freshwater biomonitoring. The significant contributions of omics techniques in the context of biological quality elements (BQEs) and their interpretations in ecological problems are crucial for biomonitoring programs. Such contributions are primarily attributed to the previously overlooked identification of interactions between different levels of biological organization and their responses, isolated and combined, to specific critical conditions.
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Affiliation(s)
- Jorge Machuca-Sepúlveda
- Doctoral Program on Natural Resources Sciences, Universidad de La Frontera, Avenida Francisco Salazar, 01145, P.O. Box 54-D, Temuco 4780000, Chile
- Department of Chemical Engineering, Faculty of Engineering and Science, Universidad de La Frontera, Temuco 4811230, Chile
| | - Javiera Miranda
- Department of Chemical Engineering, Faculty of Engineering and Science, Universidad de La Frontera, Temuco 4811230, Chile
| | - Nicolás Lefin
- Department of Chemical Engineering, Faculty of Engineering and Science, Universidad de La Frontera, Temuco 4811230, Chile
| | - Alejandro Pedroso
- Department of Chemical Engineering, Faculty of Engineering and Science, Universidad de La Frontera, Temuco 4811230, Chile
| | - Jorge F Beltrán
- Department of Chemical Engineering, Faculty of Engineering and Science, Universidad de La Frontera, Temuco 4811230, Chile
| | - Jorge G Farias
- Department of Chemical Engineering, Faculty of Engineering and Science, Universidad de La Frontera, Temuco 4811230, Chile
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Rožman M, Lekunberri I, Grgić I, Borrego CM, Petrović M. Effects of combining flow intermittency and exposure to emerging contaminants on the composition and metabolic response of streambed biofilm bacterial communities. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 877:162818. [PMID: 36914121 DOI: 10.1016/j.scitotenv.2023.162818] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2022] [Revised: 02/20/2023] [Accepted: 03/08/2023] [Indexed: 05/06/2023]
Abstract
Freshwater ecosystems are characterised by the co-occurrence of stressors that simultaneously affect the biota. Among these, flow intermittency and chemical pollution severely impair the diversity and functioning of streambed bacterial communities. Using an artificial streams mesocosm facility, this study examined how desiccation and pollution caused by emerging contaminants affect the composition of stream biofilm bacterial communities, their metabolic profiles, and interactions with their environment. Through an integrative analysis of the composition of biofilm communities, characterization of their metabolome and composition of the dissolved organic matter, we found strong genotype-to-phenotype interconnections. The strongest correlation was found between the composition and metabolism of the bacterial community, both of which were influenced by incubation time and desiccation. Unexpectedly, no effect of the emerging contaminants was observed, which was due to the low concentration of the emerging contaminants and the dominant impact of desiccation. However, biofilm bacterial communities modified the chemical composition of their environment under the effect of pollution. Considering the tentatively identified classes of metabolites, we hypothesised that the biofilm response to desiccation was mainly intracellular while the response to chemical pollution was extracellular. The present study demonstrates that metabolite and dissolved organic matter profiling may be effectively integrated with compositional analysis of stream biofilm communities to yield a more complete picture of changes in response to stressors.
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Affiliation(s)
- Marko Rožman
- Ruđer Bošković Institute, Bijenička cesta 54, 10000 Zagreb, Croatia; Catalan Institute for Water Research (ICRA), Emili Grahit 101, 17003 Girona, Spain.
| | - Itziar Lekunberri
- Catalan Institute for Water Research (ICRA), Emili Grahit 101, 17003 Girona, Spain
| | - Ivana Grgić
- Ruđer Bošković Institute, Bijenička cesta 54, 10000 Zagreb, Croatia
| | - Carles M Borrego
- Catalan Institute for Water Research (ICRA), Emili Grahit 101, 17003 Girona, Spain; Group of Molecular Microbial Ecology, Institute of Aquatic Ecology, University of Girona, E-17001 Girona, Spain
| | - Mira Petrović
- Catalan Institute for Water Research (ICRA), Emili Grahit 101, 17003 Girona, Spain; Catalan Institution for Research and Advanced Studies (ICREA), Passeig Lluís Companys 23, 08010 Barcelona, Spain
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