* stands for equal contributions


  • O. O’Connor, T. Putita Ou, F. Aubry, S. Dabo, S. Russet, D. Girault, S. In, M. Minier, S. Lequime, T. Hoem, S. Boyer, P. Dussart, N. Pocquet, V. Burtet-Sarramegna, L. Lambrechts, V. Duong & M. Dupont-Rouzeyrol (2021) Potential role of vector-mediated natural selection in dengue virus genotype/lineage replacements in two epidemiologically contrasted settings. Emerging Microbes & Infections 10(1): 1346-1357 [Link]
  • M. Bletsa, B. Vrancken, S. Gryseels, I. Boonen, A. Fikatas, Y. Li, A. Laudisoit, S. Lequime, J. Bryja, R. Makundi, Y. Meheretu, B. Dudu Akaibe, S. Gambalemoke Mbalitini, F. Van de Perre, N. Van Houtte, J. Těšíková, E. Wollants, M. Van Ranst, J.F. Drexler, E. Verheyen, H. Leirs, J. Gouy de Bellocq, P. Lemey (2021) Molecular detection and genomic characterization of diverse hepaciviruses in African rodents. Virus Evolution 7(1): veab036. [Link]
  • F. Aubry*, S. Jacobs*, M. Darmuzey*, S. Lequime, L. Delang, A. Fontaine, N. Jupatanakul, E. F. Miot, S. Dabo, C. Manet, X. Montagutelli, A. Baidaliuk, F. Gambaro, E. Simon-Lorière, M. Gilsoul, C. M. Romero-Vivas, V.-M. Cao-Lormeau, R. G. Jarman, C. T. Diagne, O. Faye, O. Faye, A. A. Sall, L. Nguyen, J. Neyts, L. Nguyen, S. J. F. Kaptein** & L. Lambrechts** (2021) Recent African strains of Zika virus display higher transmissibility and fetal pathogenicity than Asian strains. Nature Communications 12:916 [Link]


  • S. Lequime, J.-S. Dehecq, S. Matheus, F. de Laval, L. Almeras, S. Briolant & A. Fontaine (2020) Modeling intra-mosquito dynamics of Zika virus and its dose-dependence confirms the low epidemic potential of Aedes albopictus. PLoS Pathogens 16(12): e1009068. [Link]
  • S. Dellicour, S. Lequime, B. Vrancken, M. S. Gill, P. Bastide, K. Gangavarapu, N. Matteson, Y. Tan, L. du Plessis, A. A. Fisher, M. I. Nelson, M. Gilbert, M. A. Suchard, K. G. Andersen, N. D. Grubaugh, O. G. Pybus & P. Lemey (2020) Phylogeographic and phylodynamic approaches to epidemiological hypothesis testing. Nature Communications 11:5620. [Link]
  • R. Bellone*, S. Lequime*, H. Jupille*, G. P. Göertz, F. Aubry, L. Mousson, G. Piorkowski, P.-S. Yen, G. Gabiane, M. Vazeille, A. Sakuntabhai, G. P. Pijlman, X. de Lamballerie, L. Lambrechts & A.-B. Failloux (2020) Experimental adaptation of dengue virus 1 to Aedes albopictus mosquitoes by in vivo selection. Scientific Reports 10:18404. [Link]
  • M. Altinli, S. Lequime, C. Atyame, F. Justy, M. Weill, M. Sicard (2020) Wolbachia modulates prevalence and viral load of Culex pipiens densoviruses in natural populations. Molecular Ecology 29(20):4000-4013. [Link]
  • Y. Suzuki, A. Baidaliuk, P. Miesen, L. Frangeul, A. B. Crist, S. H. Merkling, A. Fontaine, S. Lequime, I. Moltini-Conclois, H. Blanc, R. P. van Rij, L. Lambrechts & M.-C. Saleh (2020) Non-retroviral endogenous viral element limits cognate virus replication in Aedes aegypti ovaries. Current Biology 30(18): 3495-3506. [Link]
  • A. Düx*, S. Lequime*, L. V. Patrono, B. Vrancken, S. Boral, J. F. Gogarten, A. Hilbig, D. Horst, K. Merkel, B. Prepoint, S. Santibanez, J. Schlotterbeck, M. A. Suchard, M. Ulrich, N. Widulin, A. Mankertz, F. H. Leendertz, K. Harper, P. Lemey** & S. Calvignac-Spencer** (2020) Measles virus and rinderpest virus divergence dated to the sixth century BCE. Science 368(6497): 1367-1370. [Link] Highlighted by Kai Kupferschmidt (30 Dec. 2019) Measles may have emerged when large cities rose, 1500 years earlier than thought. Science. [Link] and Kai Kupferschmidt (3 Jan. 2020) Study pushes emergence of measles back to antiquity. Science 367(6473): 11-12. [Link]
  • S. Lequime, P. Bastide, S. Dellicour, P. Lemey & G. Baele (2020) nosoi: a stochastic agent-based transmission chain simulation framework in R. Methods in Ecology and Evolution. 11:1002-1007. [Link]
  • O. Faye*, M. de Lourdes Monteiro*, B. Vrancken*, M. Prot*, S. Lequime, M. Diarra, O. Ndiaye, T. Valdez, S. Tavarez, J. Ramos, S. Leal, C. Pires, A. Moreira, M. F. Tavares, L. Fernandes, J. N. Narreto, M. do Céu Teixeira, M. da Luz de Lima Mendonça, C. Cardosa da Sila Laite Gomes, M. S. Castellon, L. Ma, F. Lemoine, F. Gambaro, D. Delaune, G. Fall, M. Diop, A. Sakuntabhai, C. Loucoubar, P. Lemey, E. C. Holmes, O. Faye, A. A. Sall & E. Simon-Lorière. (2020) Genomic epidemiology of 2015–2016 Zika virus outbreak in Cape Verde. Emerging Infectious Diseases 26(6):1084-1090. [Link]
  • A. Baidaliuk, S. Lequime, I. Moltini-Conclois, S. Dabo, L. B. Dickson, M. Prot, V. Duong, P. Dussart, S. Boyer, C. Shi, J. Matthijnssens, J. Guglielmini, A. Gloria-Soria, E. Simon-Lorière & L. Lambrechts (2020) Novel genome sequences of cell-fusing agent virus allow comparison of virus phylogeny with the genetic structure of Aedes aegypti populations. Virus Evol. 6(1): veaa018. [Link]


  • M. Altinli, S. Lequime, M. Courcelle, S. François, F. Justy, A.-S. Gosselin-Grenet, M. Ogliastro, M. Weill & M. Sicard (2019) Evolution and phylogeography of Culex pipiens densovirus. Virus Evol. 5(2): vez053 [Link]
  • A. Baidaliuk, E. Miot, S. Lequime, I. Moltini-Conclois, F. Delaigue, S. Dabo, L. Dickson, F. Aubry, S. Merkling, V.-M. Cao-Lormeau & L. Lambrechts (2019) Cell-fusing agent virus reduces arbovirus dissemination in Aedes aegypti mosquitoes in vivo. J. Virol. 93:e00705-19. [Link]
  • L. de Borba, S. M. Villordo, F. L. Marsico, J. M. Carballeda, C. V. Filomatori, L. G. Gebhard, H. M. Pallarés, S. Lequime, L. Lambrechts, I. Sánchez Vargas, C. D. Blair & A. V. Gamarnik (2019) RNA Structure Duplication in the Dengue Virus 3′ UTR: Redundancy or Host Specificity? mBio 10(1) e02506-18. [Link]


  • A. Fontaine, S. Lequime, I. Moltini-Conclois, D. Jiolle, I. Leparc-Goffart, R. C. Reiner Jr. & L. Lambrechts (2018) Epidemiological significance of dengue virus genetic variation in mosquito infection dynamics. PLoS Pathog. 14(7): e1007187. [Link] (Highlighted by Caroline Ash (03 Aug. 2018) Transit time inside a mosquito. Science 361(6401): 464. [Link])
  • J. Peccoud, S. Lequime, I. Conclois, I. Giraud, L. Lambrechts & C. Gilbert (2018) A survey of virus recombination uncovers canonical features of artificial chimeras generated during library preparation. G3 (Bethesda) 8(4): 1129-1138. [Link]


  • S. Lequime*, V. Richard*, V.-M. Cao-Lormeau & L. Lambrechts (2017) Full-genome dengue virus sequencing in mosquito saliva shows lack of convergent positive selection during transmission by Aedes aegypti. Virus Evol. 3(2): vex031. [Link]
  • S. Lequime & L. Lambrechts (2017) Discovery of flavivirus-derived endogenous viral elements in Anopheles mosquito genomes supports the existence of Anopheles-associated insect-specific flaviviruses. Virus Evol. 3(1): vew035. [Link]


  • L. Lambrechts & S. Lequime (2016) Evolutionary dynamics of dengue virus populations within the mosquito vector. Curr. Opin. Virol. 21: 47-53. [Link]
  • S. Lequime, A. Fontaine, M. Ar Gouilh, I. Conclois-Moltini & L. Lambrechts (2016) Genetic drift, purifying selection and vector genotype shape dengue virus intra-host genetic diversity in mosquitoes. PLoS Genet. 12(6): e1006111. [Link] (Recommended by F. Fabre and B. Moury (2017) Vectors as motors (of virus evolution). Peer Community in Evolutionary Biology, 100021. [Link])
  • S. Lequime, R. E. Paul & L. Lambrechts (2016) Determinants of arbovirus vertical transmission in mosquitoes. PLoS Pathog. 12(5): e1005548. [Link]
  • A. Fontaine, D. Jiolle, I. Moltini-Conclois, S. Lequime & L. Lambrechts (2016) Excretion of dengue virus RNA by Aedes aegypti allows non-destructive monitoring of viral dissemination in individual mosquitoes. Sci. Rep. 6: 24885. [Link]


  • S. Lequime & L. Lambrechts (2014) Vertical transmission of arboviruses in mosquitoes: a historical perspective. Infect. Genet. Evol. 28:681-90. [Link]


  • B. Vrancken, S. Lequime, K. Theys & P. Lemey (2010) Covering all bases in HIV research: unveiling a hidden world of viral evolution. AIDS Reviews 12(2): 89-102. [Link]