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Unraveling the Microbiome-Metabolome Nexus for Innovative One-Health Solution

hal.structure.identifierPlateforme Bordeaux Metabolome
hal.structure.identifierEcosystèmes aquatiques et changements globaux [UR EABX]
dc.contributor.authorCREUSOT, Nicolas
hal.structure.identifierToulouse Biotechnology Institute [TBI]
hal.structure.identifierMetaToul FluxoMet [TBI-MetaToul]
dc.contributor.authorBELLVERT, Floriant
hal.structure.identifierInstitut Des Substances et Organismes de la Mer - UR 2160 [ISOMER]
dc.contributor.authorBERTRAND, Samuel
hal.structure.identifierCentre de recherches insulaires et observatoire de l'environnement [CRIOBE]
hal.structure.identifierAkiNaO
dc.contributor.authorBERTRAND, Cédric
hal.structure.identifierInstitut des sciences analytiques et de physico-chimie pour l'environnement et les materiaux [IPREM]
dc.contributor.authorCOLAS, Simon
hal.structure.identifierMetaboHUB-MetaToul
hal.structure.identifierMétabolisme et Xénobiotiques [ToxAlim-MeX]
dc.contributor.authorCOTTRET, Ludovic
hal.structure.identifierMetaboHUB-Clermont
dc.contributor.authorDIÉMÉ, Binta
hal.structure.identifierPlateforme Bordeaux Metabolome
hal.structure.identifierEcosystèmes aquatiques et changements globaux [UR EABX]
dc.contributor.authorEON, Mélissa
hal.structure.identifierStation de Biologie Marine de Concarneau
hal.structure.identifierMuséum national d'Histoire naturelle [MNHN]
hal.structure.identifierBiologie des Organismes et Ecosystèmes Aquatiques [BOREA]
dc.contributor.authorHUBAS, Cédric
hal.structure.identifierLaboratoire d'innovation moléculaire et applications [LIMA]
hal.structure.identifierLaboratoire Vigne Biotechnologie et Environnement [LVBE]
dc.contributor.authorGODDARD, Mary-Lorène
hal.structure.identifierLaboratoire de Géographie Physique et Environnementale [GEOLAB]
dc.contributor.authorJOUSSE, Cyril
hal.structure.identifierMuséum national d'Histoire naturelle [MNHN]
hal.structure.identifierMolécules de Communication et Adaptation des Micro-organismes [MCAM]
dc.contributor.authorMARIE, Benjamin
hal.structure.identifierMetaToul Agromix
hal.structure.identifierLaboratoire de Recherche en Sciences Végétales [LRSV]
dc.contributor.authorMARTI, Guillaume
hal.structure.identifierMetaboHUB-MetaToul
hal.structure.identifierToulouse Biotechnology Institute [TBI]
dc.contributor.authorMILLARD, Pierre
hal.structure.identifierUniversité de Bordeaux [UB]
hal.structure.identifierPlateforme Bordeaux Metabolome
hal.structure.identifierBiologie du fruit et pathologie [BFP]
dc.contributor.authorPÉTRIACQ, Pierre
hal.structure.identifierPlateforme Bordeaux Metabolome
hal.structure.identifierUnité de Recherche Œnologie [Villenave d'Ornon] [OENO]
dc.contributor.authorVALLS FONAYET, Josep
hal.structure.identifierCentre de recherches insulaires et observatoire de l'environnement [CRIOBE]
hal.structure.identifierUniversité de Perpignan Via Domitia [UPVD]
dc.contributor.authorSALVIA, Marie-Virginie
hal.structure.identifierHelmholtz Zentrum für Umweltforschung = Helmholtz Centre for Environmental Research [UFZ]
dc.contributor.authorSCHMITT-JANSEN, Mechthild
hal.structure.identifierEcosystèmes aquatiques et changements globaux [UR EABX]
hal.structure.identifierPlateforme Bordeaux Metabolome
dc.contributor.authorZI, Lin
dc.description.abstractEnMicrobial communities, encompassing a vast taxonomic diversity, are fundamental to ecosystem integrity, biogeochemical cycles, and the health of humans, animals, and plants, along the One Health concept. A major scientific goal is to understand how these complex consortia function, interact, and adapt to environmental changes. Microbial meta-metabolomics has emerged as a powerful approach to tackle this by characterizing the collective metabolome of an entire community, linking it to environmental conditions and biogeochemical processes. It captures the functional output of both cultivable and uncultivable organisms, tracing chemical interactions and the impact of environmental perturbations. However, while meta-metabolomics provides a comprehensive snapshot of community chemistry, it alone cannot decipher the precise dynamics of which microorganisms are producing metabolites, when, where, and why. To address this, we propose the Microbial Metabolomics Framework (MiMetWork). This novel framework expands beyond descriptive meta-metabolomics to integrate spatial and temporal metabolomic characterizations with other omics data and phenotyping techniques. MiMetWork employs high-throughput screening of various microbiome components—from single cells to complex communities—under controlled conditions to elucidate ecophysiological functions and interaction mechanisms. By combining untargeted and targeted metabolomic datasets with microbial composition and pathway information, MiMetWork aims to build causal models of microbiome function and adaptation. This review outlines how this integrative framework leverages technological advances to elucidate microbiome interactions and functional responses across human, animal, and environmental niches, thereby addressing critical research gaps and enhancing our predictive understanding of microbiomes within the One Health paradigm.
dc.description.sponsorshipDéveloppement d'une infrastructure française distribuée pour la métabolomique dédiée à l'innovation
dc.description.sponsorshipNext generation metabolomics and fluxomics, from population to single cells - ANR-21-ESRE-0035
dc.description.sponsorshipInduction Rationnelle de Produits Naturels Fongiques - ANR-18-CE43-0013
dc.description.sponsorshipApproche métabolomique pour décrypter l'acquisition de tolérance induite par les (bio)fongicides dans les biofilms d'eau douce - ANR-23-CE34-0003
dc.language.isoen
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/
dc.subject.enMetabolomics
dc.subject.enMicrobial activity
dc.subject.enGlobal change
dc.subject.enMicrobial interaction
dc.subject.enMicrobiomes
dc.title.enUnraveling the Microbiome-Metabolome Nexus for Innovative One-Health Solution
dc.typeDocument de travail - Pré-publication
dc.subject.halSciences du Vivant [q-bio]
dc.subject.halSciences de l'environnement/Biodiversité et Ecologie
dc.subject.halSciences de l'environnement/Environnement et Société
dc.subject.halSciences de l'environnement/Milieux et Changements globaux
dc.subject.halSciences du Vivant [q-bio]/Ecologie, Environnement/Interactions entre organismes
dc.description.sponsorshipEuropePartnership for the Assessment of Risks from Chemicals
hal.identifierhal-05228419
hal.version1
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-05228419v1
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.au=CREUSOT,%20Nicolas&BELLVERT,%20Floriant&BERTRAND,%20Samuel&BERTRAND,%20C%C3%A9dric&COLAS,%20Simon&rft.genre=preprint


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