[en] One Health seeks to integrate and balance the health of humans, animals, and environmental systems, which are intricately linked through microbiomes. These microbial communities exchange microbes and genes, influencing not only human and animal health but also key environmental, agricultural, and biotechnological processes. Preventing the emergence of pathogens as well as monitoring and controlling the composition of microbiomes through microbial effectors including virulence factors, toxins, antibiotics, non-ribosomal peptides, and viruses holds transformative potential. However, the mechanisms by which these microbial effectors shape microbiomes and their broader functional consequences for host and ecosystem health remain poorly understood. Metaproteomics offers a novel methodological framework as it provides insights into microbial dynamics by quantifying microbial biomass composition, metabolic functions, and detecting effectors like viruses, antimicrobial resistance proteins, and non-ribosomal peptides. Here, we highlight the potential of metaproteomics in elucidating microbial effectors and their impact on microbiomes and discuss their potential for modulating microbiomes to foster desired functions.
Disciplines :
Life sciences: Multidisciplinary, general & others
Benndorf, Dirk; Bioprocess Engineering, Otto-Von-Guericke University Magdeburg, Universitätsplatz 2, 39106, Magdeburg, Germany ; Bioprocess Engineering, Max Planck Institute for Dynamics of Complex Technical Systems Magdeburg, Sandtorstraße 1, 39106, Magdeburg, Germany ; Applied Biosciences and Process Engineering, Anhalt University of Applied Sciences, Köthen, Germany
Uzzau, Sergio; Department of Biomedical Sciences, University of Sassari, 07100, Sassari, Italy
Seifert, Jana; Institute of Animal Science, University of Hohenheim, Emil-Wolff-Str, Stuttgart, Germany ; HoLMiR - Hohenheim Center for Livestock Microbiome Research, University of Hohenheim, Leonore-Blosser-Reisen Weg, Stuttgart, Germany
Grenga, Lucia; Département Médicaments Et Technologies Pour La Santé (DMTS), Université Paris-Saclay, CEA, INRAE, SPI, Bagnols-Sur-Cèze, France
Pabst, Martin; Department of Biotechnology, Delft University of Technology, Delft, The Netherlands
Schmitt, Heike; Department of Biotechnology, Delft University of Technology, Delft, The Netherlands ; Institute for Infectious Disease Control, National Institute for Public Health and the Environment (RIVM), Bilthoven, The Netherlands
Mesuere, Bart; Department of Applied Mathematics, Computer Science and Statistics, Ghent University, 9000, Ghent, Belgium
Van Den Bossche, Tim; VIB - UGent Center for Medical Biotechnology, VIB, 9052, Ghent, Belgium ; Department of Biomolecular Medicine, Faculty of Medicine and Health Sciences, Ghent University, 9052, Ghent, Belgium
Haange, Sven-Bastiaan; Department of Molecular Toxicology, Helmholtz-Centre for Environmental Research - UFZ GmbH, Permoserstrasse 15, 04318, Leipzig, Germany
Jehmlich, Nico; Department of Molecular Toxicology, Helmholtz-Centre for Environmental Research - UFZ GmbH, Permoserstrasse 15, 04318, Leipzig, Germany
Di Luca, Mariagrazia ; Department of Biology, University of Pisa, 56127, Pisa, Italy
Ferrer, Manuel ; Instituto de Catalisis y Petroleoquimica (ICP), CSIC, 28049, Madrid, Spain
Serrano-Villar, Sergio ; Department of Infectious Diseases, Hospital Universitario Ramon y Cajal, Instituto de Investigación Sanitaria Ramón y Cajal (IRYCIS), CIBER de Enfermedades Infecciosas, Madrid, Spain
Armengaud, Jean; Département Médicaments Et Technologies Pour La Santé (DMTS), Université Paris-Saclay, CEA, INRAE, SPI, Bagnols-Sur-Cèze, France
Bode, Helge B; Department of Natural Products in Organismic Interactions, Max-Planck-Institut for Terrestrial Microbiology, Karl-Von-Frisch-Str. 10, 35043, Marburg, Germany ; Center for Synthetic Microbiology (SYNMIKRO), Phillips University Marburg, 35043, Marburg, Germany ; Department of Chemistry, Phillips University Marburg, 35043, Marburg, Germany
Hellwig, Patrick; Bioprocess Engineering, Otto-Von-Guericke University Magdeburg, Universitätsplatz 2, 39106, Magdeburg, Germany ; Bioprocess Engineering, Max Planck Institute for Dynamics of Complex Technical Systems, Sandtorstraße 1, 39106, Magdeburg, Germany
Masselot, Catherine Robbe; Université de Lille, CNRS, UMR, 8576 - UGSF, Lille, France
Léonard, Renaud; Université de Lille, CNRS, UMR, 8576 - UGSF, Lille, France
WILMES, Paul ; University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Systems Ecology
Région Occitanie Agence Nationale de la Recherche Research Foundation Flanders Agencia Estatal de Investigación NextGenerationEU/PRTR CSIC
Funding text :
Manuel Ferrer acknowledges funding from the Agencia Estatal de Investigaci\u00F3n (AEI) (https://www.mciu/AEI/10.13039/501100011033),\u00A0FSE+,\u00A0the European Union, the NextGenerationEU/PRTR, and CSIC (COCREA program), under grants PID2023-153370OB-I00 and INMUNOBIOTA.\u00A0Sergio Serrano-Villar acknowledgess funding from Instituto de Salud Carlos III (projects\u00A0ICI20/00058, PI21/00141, and PI24/00078), including the FORTALECE program (FORT23/0004), supported by\u00A0the Next Generation EU funds, which finance the initiatives under the Recovery and Resilience Facility (RRF) Tim Van Den Bossche acknowledges funding from the Research Foundation Flanders (FWO) [1286824N]. Lucia Grenga and Jean Armengaud express their gratitude to the R\u00E9gion Occitanie (DeepMicro grant) and the Agence Nationale de la Recherche (ANR-20-CE34-0012 and ANR-24-INBS-0015).Manuel Ferrer acknowledges funding from the Agencia Estatal de Investigaci\u00F3n (AEI) ( https://www.mciu/AEI/10.13039/501100011033 ), FSE+, the European Union, the NextGenerationEU/PRTR, and CSIC (COCREA program), under grants PID2023-153370OB-I00 and INMUNOBIOTA. Sergio Serrano-Villar acknowledgess funding from Instituto de Salud Carlos III (projects ICI20/00058, PI21/00141, and PI24/00078), including the FORTALECE program (FORT23/0004), supported by the Next Generation EU funds, which finance the initiatives under the Recovery and Resilience Facility (RRF) Tim Van Den Bossche acknowledges funding from the Research Foundation Flanders (FWO) [1286824N]. Lucia Grenga and Jean Armengaud express their gratitude to the R\u00E9gion Occitanie (DeepMicro grant) and the Agence Nationale de la Recherche (ANR-20-CE34-0012 and ANR-24-INBS-0015).
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