Predictive Modelling and Ecotoxicology Group

Members

Research activities of team MEPS team aim at proposing integrated mathematical and statistical modelling approaches to predict the effects of environmental disturbances at different levels of biological organisation. We are also interested in their functional and evolutionary consequences whether on individual fitness, population, community and/or ecosystem dynamics. In order to build generic enough models with a high predictive power, team MEPS is particularly interested in understanding the functioning of the complex systems under consideration, and not only a very refined description of them. Thus, our models always respect the parsimony principl, ensuring that they remain sufficiently simple with limited "black box" effects. Particular attention is also paid to the robustness, and therefore the generalizability, of the knowledge produced through these models, with the final goal of improving the overall acceptability of modelling approaches in support of decision-making for environmental risk assessment.

Reducing the complexity of systems in order to produce relevant and generic enough models must not preclude having solid mathematical foundations, so that these models remain useful tools for understanding the mechanisms underlying disturbance processes and effects observed on tissues, organisms, populations, communities and/or ecosystems. Such mechanistic models must also include the temporal dimension, which is essential when we are talking about dynamic processes as for realistic exposure scenarios to several environmental pressures. At the same time, complementary criteria of short- and long-term effects must be taken into account to address issues such as remediation and restoration of some specific environments as well as the potential of providing a dynamical and integrative prediction of effects over several generations.
In this context, team MEPS is today focused on the following topics:

  • The development of mechanistic models based on physiological, namely physiologically based toxicokinetic-toxicodynamic (PBTKTD) models, in the perspective of providing predictive and diagnostic tools for the environmental quality;
  • The plasticity of individual responses to one (or a combination of) stress factor(s) (e.g. contamination and/or global warming) and the effects of adaptation phenomena on the long-term dynamics of populations;
  • The prediction of the species sensitivity distribution within communities when exposed to chemical contaminants by integrating inter-species variability on various biological parameters of interest and not only on a critical effect concentration;
  • The development and the maintenance of the MOSAIC web platform (MOdeling and StAtistical tools for ecotoxICology, http://mosaic.univ-lyon1.fr) which freely and in a user-friendly way provides a collection of tools for data analysis and modelling in the field of ecotoxicology.

Publications

Display of 61 to 90 publications on 226 in total

Modèles de croissance des micro-organismes, in Micro-organismes & biodiversité

Sandrine Charles, Hubert Charles

Textes et documents pour la classe . 1130 : 60-63

Journal article

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Modélisation biodynamique de l'accumulation de substances persistantes par des invertébrés benthiques d'eau douce

Marc Babut, A. Ratier, N. Delorme, C. Lopes, Paul Labadie, H. Budzinski

: 70

Report

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Recommendations to address uncertainties in environmental risk assessment using toxicokinetic-toxicodynamic models

Virgile Baudrot, Sandrine Charles

Scientific Reports . 9 ( 1 )

DOI: 10.1038/s41598-019-47698-0

Journal article

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A Bayesian framework for estimating parameters of a generic toxicokinetic model for the bioaccumulation of organic chemicals by benthic invertebrates: Proof of concept with PCB153 and two freshwater species

Aude Ratier, Christelle Lopes, Pierre Labadie, Hélène Budzinski, Nicolas Delorme, Herve Queau...

Ecotoxicology and Environmental Safety . 180 : 33-42

DOI: 10.1016/j.ecoenv.2019.04.080

Journal article

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A Bayesian approach to estimate biodynamic model parameters: bioaccumulation of PCB 153 by the freshwater crustacean Gammarus fossarum

A. Ratier, C. Lopes, H. Budzinski, Paul Labadie, Olivier Geffard, Marc Babut

SETAC . : 1

Poster

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Approche bayésienne pour estimer les paramètres d'un modèle biodynamique chez les invertébrés benthiques d'eau douce

A. Ratier, C. Lopes, H. Budzinski, Paul Labadie, Olivier Geffard, Marc Babut

SEFA . : 20

Conference paper

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Scientific Opinion on the state of the art of Toxicokinetic/Toxicodynamic (TKTD) effect models for regulatory risk assessment of pesticides for aquatic organisms

Colin Ockleford, Paulien Adriaanse, Philippe Berny, Theodorus Brock, Sabine Duquesne, Sandro Grilli...

EFSA Journal . 16 ( 8 )

DOI: 10.2903/j.efsa.2018.5377

Journal article

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Fit Reduced GUTS Models Online: From Theory to Practice

Virgile Baudrot, Philippe Veber, Guillaume Gence, Sandrine Charles

Integrated Environmental Assessment and Management . 14 ( 5 ) : 625-630

DOI: 10.1002/ieam.4061

Journal article

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New Insights to Compare and Choose TKTD Models for Survival Based on an Interlaboratory Study for Lymnaea stagnalis Exposed to Cd

Virgile Baudrot, Sara Preux, Virginie Ducrot, Alain Pave, Sandrine Charles

Environmental Science and Technology . 52 ( 3 ) : 1582-1590

DOI: 10.1021/acs.est.7b05464

Journal article

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MOSAIC: a web-interface for statistical analyses in ecotoxicology

Sandrine Charles, Philippe Veber, Marie Laure Delignette-Muller

Environmental Science and Pollution Research . 25 ( 12 ) : 11295-11302

DOI: 10.1007/s11356-017-9809-4

Journal article

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MOSAIC : une plate-forme web pour l’analyse statistique des données d’écotoxicologie. Fiche Thématique N°13

Sandrine Charles, Virgile Baudrot, Philippe Veber

: 4 p.

see the publication

tRophicPosition , an r package for the Bayesian estimation of trophic position from consumer stable isotope ratios

Claudio Quezada-Romegialli, Andrew Jackson, Brian Hayden, Kimmo Kahilainen, Christelle Lopes, Chris Harrod

Methods in Ecology and Evolution . 9 ( 6 ) : 1592-1599

DOI: 10.1111/2041-210X.13009

Journal article

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Modélisation biodynamique de l'accumulation de composés organiques persistants par des invertébrés benthiques d'eau douce

A. Ratier, Marc Babut, C. Lopes, H. Budzinski, Paul Labadie, Olivier Geffard

SEFA . : 1

Poster

see the publication

Combined effect of temperature and ammonia on molecular response and survival of the freshwater crustacean Gammarus pulex

Youn Henry, Christophe Piscart, Sandrine Charles, Hervé Colinet

Ecotoxicology and Environmental Safety . 137 : 42-48

DOI: 10.1016/j.ecoenv.2016.11.011

Journal article

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Les PCB dans le Rhône

Marc Babut, H. Persat, M. Desmet, C. Lopes, Brice Mourier, J. Tronczynski

PCB, environnement et santé . : 473-498

Book chapter

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Development and validation of LC–MS methods for peptaibol quantification in fungal extracts according to their lengths

Pierre‐emmanuel Buffet, Aurore Zalouk-Vergnoux, Laurence Poirier, Christelle Lopes, Christine Risso-De-Faverney, Marielle Guibbolini...

Journal of Chromatography B - Analytical Technologies in the Biomedical and Life Sciences . 1009-1010 ( 7 ) : 25-33

DOI: 10.1002/etc.2967

Journal article

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De la bioaccumulation aux effets écotoxicologiques : comment modéliser le cycle de vie de Gammarus fossarum pour prédire et évaluer l’impact d’une contamination sur les populations d’une espèce sentinelle en biosurveillance ?

C. Lopes, S. Charles, Marc Babut, Arnaud Chaumot, Olivier Geffard

Colloque 2016 de la Société Française d'Ecotoxicologie Fondamentale et Appliquée . : 56

Conference paper

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Combined effect of temperature and ammonia on the freshwater crustacean Gammarus pulex

Youn Henry, Hervé Colinet, Christophe Piscart, S. Charles

SETAC Europe 26th Annual Meeting .

Conference paper

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Modelling survival: exposure pattern, species sensitivity and uncertainty

R. Ashauer, C. Albert, S. Augustine, N. Cedergreen, Sandrine Charles, V. Ducrot...

Scientific Reports . 6 : 29178

DOI: 10.1038/srep29178

Journal article

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Combined effect of temperature and ammonia on the freshwater crustacean Gammarus pulex

Youn Henry, Hervé Colinet, Christophe Piscart, Sandrine Charles

SETAC Europe 26th Annual Meeting .

Poster

see the publication

Mechanistic modelling of daphnid-algae dynamics within a laboratory microcosm

Dominique Lamonica, Ulysse Herbach, Frédéric Orias, Bernard Clément, Sandrine Charles, Christelle Lopes

Ecological Modelling . 320 : 213–230

DOI: 10.1016/j.ecolmodel.2015.09.020

Journal article

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Ecophysiological responses of Gammarus pulex to the combined effects of temperature and ammonia

Youn Henry, Christophe Piscart, Hervé Colinet, Sandrine Charles

26th Annual Meeting SETAC Europe .

Poster

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Optimizing the design of a reproduction toxicity test with the pond snail Lymnaea stagnalis

Sandrine Charles, Virginie Ducrot, Didier Azam, Rachel Benstead, Denise Brettschneider, Karel de Schamphelaere...

Regulatory Toxicology and Pharmacology . 81 : 47-56

DOI: 10.1016/j.yrtph.2016.07.012

Journal article

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Modelling algae-duckweed interaction under chemical pressure within a laboratory microcosm

Dominique Lamonica, Bernard Clement, Sandrine Charles, Christelle Lopes

Ecotoxicology and Environmental Safety . 128 : 252-65

DOI: 10.1016/j.ecoenv.2016.02.008

Journal article

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Les PCB dans le Rhône

Marc Babut, Henri Persat, Marc Desmet, Christelle Lopes, Brice Mourier, Jacek Tronczyński

PCB, environnement et santé . 978-2-7430-2005-7

Book chapter

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Modélisation dynamique des processus physiologiques liés à la gestion de l’énergie chez Gammarus fossarum

C. Lopes, F. Mounier, S. Charles, Arnaud Chaumot, Olivier Geffard

Journées de Modélisation BioMathématique de Besançon . : 78

Conference paper

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Dynamic modeling of physiological processes related to energy management in Gammarus fossarum

C. Lopes, F. Mounier, S. Charles, Arnaud Chaumot, Olivier Geffard

SETAC Europe 25th Annual Meeting . : 1

Poster

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Cadmium sulfide quantum dots induce oxidative stress and behavioral impairments in the marine clam Scrobicularia plana

P. E. Buffet, A. Zalouk-Vergnoux, L. Poirier, Christelle Lopes, C. Risso-De-Faverney, M. Guibbolini...

Environmental Toxicology and Chemistry . 34 : 1659-64

Journal article

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Constructing Time-Resolved Species Sensitivity Distributions Using a Hierarchical Toxico-Dynamic Model

Guillaume Kon Kam King, Marie Laure Delignette-Muller, Ben J. Kefford, Christophe Piscart, Sandrine Charles

Environmental Science and Technology . 49 ( 20 ) : 12465-12473

DOI: 10.1021/acs.est.5b02142

Journal article

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A Toolbox for Nonlinear Regression in R: The Package nistools

F. Baty, C. Ritz, Sandrine Charles, M. Brutsche, Jean-Pierre Flandrois, Marie Laure Delignette-Muller

Journal of Statistical Software . 66 : 1-21

Journal article

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