Thomas
HINDRE

Enseignant-Chercheur
Team TrEE
[info]
Address: Bâtiment Jean Roget, Place du Commandant Nal, Domaine de la Merci
Office: 510-B

I'm a lecturer at the UFR Chemistry/Biology in Grenoble Alpes University and work in the TrEE team at the TIMC laboratory. As a molecular bacteriologist, I combine omics and biochemical approaches with evolution experiments to understand the mechanisms underlying the adaptability of bacterial populations. In particular, I am working on characterising the lineages of the Long Term Evolution Experiment (LTEE) in which 12 independent populations of the bacterium Escherichia coli have been propagated since 1988. In parallel, I am developing evolution experiments to study the plasticity of gene regulatory networks and the evolutionary dynamics of resistance integrons in Escherichia coli.

Keywords

Bacteriology, Experimental Evolution, Regulation of gene expression, Genome plasticity

Supervised thesis
Flora GAUDILLIERE : "Rôle des séquences d'insertion dans l'évolution des génomes bactériens"
Aurore AKOKA : "Étude de l’évolution des réseaux de régulation chez Escherichia coli au cours d’une expérience d’évolution au long terme"
Publications

Complete list of publications

Selected publications

Insertion-sequence-mediated mutations both promote and constrain evolvability during a long-term experiment with bacteria.
Consuegra, J., Gaffé, J., Lenski, R. E., Hindré, T., Barrick, J. E., Tenaillon, O., & Schneider, D. (2021). Nature communications, 12(1), 980. https://doi.org/10.1038/s41467-021-21210-7
 
Reducing the ionizing radiation background does not significantly affect the evolution of Escherichia coli populations over 500 generations.
Lampe, N., Marin, P., Coulon, M., Micheau, P., Maigne, L., Sarramia, D., Piquemal, F., Incerti, S., Biron, D. G., Ghio, C., Sime-Ngando, T., Hindre, T., & Breton, V. (2019). Scientific reports, 9(1), 14891. https://doi.org/10.1038/s41598-019-51519-9
 
Bacterial genome architecture shapes global transcriptional regulation by DNA supercoiling.
El Houdaigui, B., Forquet, R., Hindré, T., Schneider, D., Nasser, W., Reverchon, S., & Meyer, S. (2019). Nucleic acids research, 47(11), 5648–5657. https://doi.org/10.1093/nar/gkz300
 
Plasticity of Promoter-Core Sequences Allows Bacteria to Compensate for the Loss of a Key Global Regulatory Gene.
Lamrabet, O., Plumbridge, J., Martin, M., Lenski, R. E., Schneider, D., & Hindré, T. (2019). Molecular biology and evolution, 36(6), 1121–1133. https://doi.org/10.1093/molbev/msz042
 
Epistasis and allele specificity in the emergence of a stable polymorphism in Escherichia coli.
Plucain, J., Hindré, T., Le Gac, M., Tenaillon, O., Cruveiller, S., Médigue, C., Leiby, N., Harcombe, W. R., Marx, C. J., Lenski, R. E., & Schneider, D. (2014). Science (New York, N.Y.), 343(6177), 1366–1369. https://doi.org/10.1126/science.1248688
 
New insights into bacterial adaptation through in vivo and in silico experimental evolution.
Hindré, T., Knibbe, C., Beslon, G., & Schneider, D. (2012). Nature reviews. Microbiology, 10(5), 352–365. https://doi.org/10.1038/nrmicro2750
Teachings

Leader of the Bachelor's degree in Life Sciences (Grenoble Alpes University)

Leader of the "Bacteriology" course in the Master's program "Molecular and Cellular Biology" (Grenoble Alpes University)

Projects

Role of DNA topology changes in bacterial adaptation

Role of insertion sequences (IS) in bacterial adaptation

Dissemination and evolution of resistance integrons (ANR - DIVIN : 01/2021-09/2024)

Partnerships

Jeffrey Barrick, University of Texas at Austin

Sandra Da Re, UMR1092, Limoges

Sam Meyer, UMR5240, Lyon

Ivan Junier, UMR5525, Grenoble