Sébastien Gagneux, Professor, PhD

Function(s)
Head of Department, Head of Unit

Organisational Entity

Sébastien Gagneux leads the Tuberculosis Ecology and Evolution research group at Swiss TPH and is Professor of Infection Biology at the University of Basel. He headed the Department of Medical Parasitology and Infection Biology at Swiss TPH. After receiving his PhD from the University of Basel, he worked as a postdoctoral fellow at Stanford University and at the Institute for Systems Biology in Seattle, USA. He then started his own laboratory at the MRC National Institute for Medical Research in London, UK, before joining Swiss TPH. His research focuses on the ecology and evolution of Mycobacterium tuberculosis with a particular focus on antimicrobial resistance.

 

Latest Publications

All Publications

Banaei-Esfahani A et al. LysG-driven transcriptional network rewiring underlies lineage-specific phenotypes in Mycobacterium tuberculosis. Nat Commun. 2026(in press). DOI: 10.1038/s41467-026-70539-4

Jovanovic A et al. Large-scale testing of antimicrobial lethality at single-cell resolution predicts mycobacterial infection outcomes. Nat Microbiol. 2026;11(2):566-583. DOI: 10.1038/s41564-025-02217-y

March V.F.A et al. Within-host evolution of drug tolerance in Mycobacterium tuberculosis. JAC Antimicrob Resist. 2026;8(1):dlag007. DOI: 10.1093/jacamr/dlag007

Zwyer M et al. Human genetic ancestry, Mycobacterium tuberculosis diversity, and tuberculosis disease severity in Dar es Salaam, Tanzania. eLife. 2026;14:RP103533. DOI: 10.7554/eLife.103533

Arbués A, Schmidiger S, Reinhard M, Borrell S, Gagneux S, Portevin D. Soluble immune mediators orchestrate protective in vitro granulomatous responses across Mycobacterium tuberculosis complex lineages. Elife. 2025;13:RP99062. DOI: 10.7554/eLife.99062

Goig G.A et al. Transmission as a key driver of resistance to the new tuberculosis drugs. N Engl J Med. 2025;392(1):97-99. DOI: 10.1056/NEJMc2404644

Goig G.A et al. Clinical and bacterial determinants of unfavorable tuberculosis treatment outcomes: an observational study in Georgia. Genome Med. 2025;17:143. DOI: 10.1186/s13073-025-01555-0

Goig G.A et al. Ecology, global diversity and evolutionary mechanisms in the Mycobacterium tuberculosis complex. Nat Rev Microbiol. 2025;23(9):602-614. DOI: 10.1038/s41579-025-01159-w

Maghradze N et al. Linking genetic and phenotypic bedaquiline resistance in Mycobacterium tuberculosis strains from Georgia. PLoS One. 2025;20(7):e0326794. DOI: 10.1371/journal.pone.0326794

March V.F.A et al. Drug-induced differential culturability in diverse strains of Mycobacterium tuberculosis. Sci Rep. 2025;15:3588. DOI: 10.1038/s41598-024-85092-7