Transient colonizing microbes promote gut dysbiosis and functional impairment
Species composition of the healthy adult gut microbiota tends to be stable over time. Destabilization of the gut microbiome under the influence of different factors is the main driver of the microbial dysbiosis and subsequent impacts on host physiology. Here, we used metagenomics data from a Swedish longitudinal cohort, to determine the stability of the gut microbiome and uncovered two distinct microbial species groups; persistent colonizing species (PCS) and transient colonizing species (TCS). We validated the continuation of this grouping, generating gut metagenomics data for additional time points from the same Swedish cohort. We evaluated the existence of PCS/TCS across different geographical regions and observed they are globally conserved features. To characterize PCS/TCS phenotypes, we performed bioreactor fermentation with faecal samples and metabolic modeling. Finally, using chronic disease gut metagenome and other multi-omics data, we identified roles of TCS in microbial dysbiosis and link with abnormal changes to host physiology.
Authors
- Victoria Meslier (ORCID: https://orcid.org/0000-0003-2699-0092)
- Lars G. Engstrand (ORCID: https://orcid.org/0000-0002-7713-2373)
- Marcela Pereira (ORCID: https://orcid.org/0000-0002-0809-780X)
- Stéphanie Blanquet‐Diot (ORCID: https://orcid.org/0000-0003-0692-8726)
- Fredrik Boulund (ORCID: https://orcid.org/0000-0002-3806-323X)
- Frederick Clasen
- Adil Mardinoğlu (ORCID: https://orcid.org/0000-0002-4254-6090)
- David L. Moyes (ORCID: https://orcid.org/0000-0002-1657-918X)
- Doheon Lee (ORCID: https://orcid.org/0000-0001-9070-4316)
- Haizhuang Cai
- Gordon Proctor (ORCID: https://orcid.org/0000-0002-5684-841X)
- Mathias Uhlén (ORCID: https://orcid.org/0000-0002-4858-8056)
- Junseok Park (ORCID: https://orcid.org/0000-0003-2312-9440)
- Fernando García-Guevara (ORCID: https://orcid.org/0000-0002-5621-6156)
- Lucie Etienne‐Mesmin (ORCID: https://orcid.org/0000-0001-6104-6043)
- Mathieu Almeida (ORCID: https://orcid.org/0000-0003-4971-0049)
- Sunjae Lee (ORCID: https://orcid.org/0000-0002-6428-5936)
- Maike Seifert (ORCID: https://orcid.org/0009-0007-0599-5245)
- Saeed Shoaie (ORCID: https://orcid.org/0000-0001-5834-4533)
- Emmanuelle Le Chatelier (ORCID: https://orcid.org/0000-0002-2724-0536)
- Florian Plaza Oñate (ORCID: https://orcid.org/0000-0001-6036-0989)
- Nicolas Pons (ORCID: https://orcid.org/0000-0002-0390-457X)
- Gholamreza Bidkhori (ORCID: https://orcid.org/0000-0002-0651-9175)
- S. Dusko Ehrlich
Institutions
- Korea Advanced Institute of Science and Technology (KR)
- King's College London (GB)
- Science for Life Laboratory (SE)
- Karolinska Institutet (SE)
- Microbiologie de l’alimentation au service de la santé (FR)
- Gwangju Institute of Science and Technology (KR)
- Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement (FR)
- University of Clermont Auvergne (FR)
- Microbiologie Environnement Digestif Santé (FR)
- Laboratoire d'Analyses Génétiques pour les Espèces Animales (FR)
- Clermont Université (FR)
- KTH Royal Institute of Technology (SE)
Publication Details
- Journal
- npj Biofilms and Microbiomes
- Published
- 2024-09-08
- DOI
- https://doi.org/10.1038/s41522-024-00561-1
- Citations
- 24
- Primary Topic
- Gut microbiota and health
- Type
- article
- Field-Weighted Citation Impact
- 5.61
Funders
- King's College London
- National Research Foundation
- Agence Nationale de la Recherche
- Korea Health Industry Development Institute
- National Research Foundation of Korea
- Knut och Alice Wallenbergs Stiftelse
- Science for Life Laboratory
- Directorate for Biological Sciences
- Engineering and Physical Sciences Research Council
- Biotechnology and Biological Sciences Research Council
- Korea National Institute of Health
- Uppsala Multidisciplinary Center for Advanced Computational Science