S.J.J. (Sebastian) Lequime, Dr

Assistant Professor | Virus Ecology & Evolution

Telephone:

E-mail:

s.j.j.lequime rug.nl

Research interests

My research aims to harness genomics and the characterization of evolutionary processes to better understand the ecology of RNA viruses across scales, from within- to between hosts, from small transmission chains to epidemics, and from deep to recent evolutionary processes.

To explore these questions, I use an integrated combination of “wet” (controlled experiments, fieldwork, high-throughput sequencing) and “dry” (bioinformatics, phylodynamics, modeling, and simulations) approaches.

Publications

Endogenous viral elements in shrew genomes provide insights into Pestivirus ancient history

Li, Y. Q., Bletsa, M., Zisi, Z., Boonen, I., Gryseels, S., Kafetzopoulou, L. E., Webster, J. P., Catalano, S., Pybus, O. G., Van de Perre, F., Li, H. T., Li, Y. Y., Li, Y. C., Abramov, A., Lymberakis, P., Lemey, P. & Lequime, S., Oct-2022, In: Molecular Biology and Evolution. 39, 10, msac190.

Research output: Contribution to journal › Article › Academic › peer-review

Measles virus and rinderpest virus divergence dated to the sixth century BCE

Düx, A., Lequime, S., Patrono, L. V., Vrancken, B., Boral, S., Gogarten, J. F., Hilbig, A., Horst, D., Merkel, K., Prepoint, B., Santibanez, S., Schlotterbeck, J., Suchard, M. A., Ulrich, M., Widulin, N., Mankertz, A., Leendertz, F. H., Harper, K., Schnalke, T. & Lemey, P.& 1 others, Calvignac-Spencer, S., 19-Jun-2020, In: Science. 368, 6497, p. 1367-1370 4 p.

Research output: Contribution to journal › Article › Academic › peer-review

A tale of caution: How endogenous viral elements affect virus discovery in transcriptomic data

Brait, N., Hackl, T., Morel, C., Exbrayat, A., Gutierrez, S. & Lequime, S., 8-Feb-2024, In: Virus Evolution. 10, 1, 28 p., vead088.

Research output: Contribution to journal › Article › Academic › peer-review

Dengue-mediated changes in the vectorial capacity of Aedes aegypti (Diptera: Culicidae): Manipulation of transmission or infection by-product?

Mateescu, I. & Lequime, S., 22-Oct-2024, (E-pub ahead of print) In: Journal of medical entomology. 10 p.

Research output: Contribution to journal › Article › Academic › peer-review

Chikungunya intra-vector dynamics in Aedes albopictus from Lyon (France) upon exposure to a human viremia-like dose range reveals vector barrier’s permissiveness and supports local epidemic potential

Viginier, B., Cappuccio, L., Garnier, C., Martin, E., Maisse, C., Valiente moro, C., Minard, G., Fontaine, A., Lequime, S., Ratinier, M., Arnaud, F. & Raquin, V., 5-Oct-2023, In: Peer Community Journal. 3, 21 p., e96.

Research output: Contribution to journal › Article › Academic › peer-review

Highly divergent CRESS DNA and picorna-like viruses associated with bleached thalli of the green seaweed Ulva

van der Loos, L. M., De Coninck, L., Zell, R., Lequime, S., Willems, A., De Clerck, O. & Matthijnssens, J., Oct-2023, In: Microbiology Spectrum. 11, 5, 25 p., e0025523.

Research output: Contribution to journal › Article › Academic › peer-review

Phylogeographic analysis of dengue virus serotype 1 and cosmopolitan serotype 2 in Africa

Selhorst, P., Lequime, S., Dudas, G., Proesmans, S., Lutumba, P., Katshongo, F., Ramadan, K., Micalessi, I., Ahuka-Mundeke, S., Vanlerberghe, V., Van Esbroeck, M. & Ariën, K., Aug-2023, In: International Journal of Infectious Diseases. 133, p. 46-52 7 p.

Research output: Contribution to journal › Article › Academic › peer-review

The sociality continuum of viruses: A commentary on Leeks et al. 2023

Lequime, S., Nov-2023, In: Journal of Evolutionary Biology. 36, 11, p. 1568-1570 3 p.

Research output: Contribution to journal › Article › Academic

Aquatic flaviviruses

Lensink, M. J., Li, Y. & Lequime, S., Sept-2022, In: Journal of Virology. 96, 17, 8 p., e0043922.

Research output: Contribution to journal › Review article › peer-review

Archival influenza virus genomes from Europe reveal genomic variability during the 1918 pandemic

Patrono, L. V., Vrancken, B., Budt, M., Düx, A., Lequime, S., Boral, S., Gilbert, M. T. P., Gogarten, J. F., Hoffmann, L., Horst, D., Merkel, K., Morens, D., Prepoint, B., Schlotterbeck, J., Schuenemann, V. J., Suchard, M. A., Taubenberger, J. K., Tenkhoff, L., Urban, C. & Widulin, N.& 6 others, Winter, E., Worobey, M., Schnalke, T., Wolff, T., Lemey, P. & Calvignac-Spencer, S., 2022, In: Nature Communications. 13, 1, p. 2314

Research output: Contribution to journal › Article › Academic › peer-review