Personal profile

Research interests

Short version

My research aims to better understand the processes of adaptation and speciation using population genetics. I use computational approaches and genomic data to test hypotheses about how natural populations evolve.

Longer version

I am interested in how natural populations evolve and adapt at the genomic level. I am particularly interested in the process of adaptation and speciation, through which clusters of individual genotypes become distinct and persist over time. This is the fundamental process that underlies the evolution and diversification of life.

How, when, and why did distinct populations or species split? What are the evolutionary footprints left in their genomes? What is the role of natural selection in shaping the diversity of natural populations and species? When sexual species hybridize and share genetic material, why don't they eventually collapse into a single species? What are the consequences of the exchanges of genetic material between species, and how often is this process beneficial? These are some of the questions I work on.

I have been working on a broad range of organisms during my career, from marine mammals to plant pathogens, and mosquitoes. Since 2012, my interest has focused increasingly towards the diverse and highly adaptable Anopheles mosquitoes, well known for being vectors of the deadly Plasmodium parasites responsible of malaria. Most anopheles species are complex of closely related species with races with distinct ecology ("ecotypes") that hybridize in the wild.

My overall goal is to improve our understanding of speciation and adaptation by testing hypotheses about the mechanics of these processes. By better understanding the pattern of diversity, introgression, and adaptation, my work also contributes to design and assess the feasibility and impacts of new vector control strategies. I use genome sequencing of natural populations combined with both descriptive and model-based computational approaches, most of which are rooted in population-genetic theory. I am interested in developing creative ways of working with genomic data, so that we can get the most out of this tremendous resource.

Expertise related to UN Sustainable Development Goals

In 2015, UN member states agreed to 17 global Sustainable Development Goals (SDGs) to end poverty, protect the planet and ensure prosperity for all. This person’s work contributes towards the following SDG(s):

  • SDG 2 - Zero Hunger
  • SDG 3 - Good Health and Well-being
  • SDG 13 - Climate Action
  • SDG 14 - Life Below Water
  • SDG 15 - Life on Land
  • SDG 17 - Partnerships for the Goals

External positions

Recommender for PCI Evol Biol (https://evolbiol.peercommunityin.org)

2017 → …

Member of the data analyses team of the MalariaGEN Ag1000 consortium (Sanger Institute)

2015 → …

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Collaborations and top research areas from the last five years

Recent external collaboration on country/territory level. Dive into details by clicking on the dots or
  • Replication data and scripts for - Mitochondrial variation in Anopheles gambiae and Anopheles coluzzii: phylogeographic legacy and mito-nuclear associations with metabolic resistance to pathogens and insecticides

    Amaya Romero, J. E. (Contributor), Chenal, C. (Creator), Ben Chehida, Y. (Creator), Miles, A. J. (Creator), Clarkson, C. S. (Creator), Pedergnana, V. (Creator), Wertheim, B. (Creator) & Fontaine, M. C. (Creator), DataSuds, 5-Aug-2024

    Dataset

  • Data from: Mixing of porpoise ecotypes in southwestern UK waters revealed by genetic profiling

    Fontaine, M. C. (Contributor), Thatcher, O. (Contributor), Ray, N. (Contributor), Piry, S. (Contributor), Brownlow, A. (Contributor), Davison, N. J. (Contributor), Jepson, P. (Contributor), Deaville, R. (Contributor) & Goodman, S. J. (Contributor), University of Groningen, 2-Feb-2017

    Dataset

  • Additional file 5 of A genotyping array for the globally invasive vector mosquito, Aedes albopictus

    Cosme, L. V. (Creator), Corley, M. K. (Creator), Johnson, T. J. (Creator), Severson, D. W. (Creator), Yan, G. (Creator), Wang, X. (Creator), Beebe, N. W. (Creator), Maynard, A. J. (Creator), Bonizzoni, M. (Creator), Khorramnejad, A. (Creator), Martins, A. J. (Creator), Lima, J. B. P. (Creator), Munstermann, L. E. (Creator), Surendran, S. N. (Creator), Chen, C. (Creator), Maringer, K. (Creator), Wahid, I. (Creator), Mukherjee, S. (Creator), Xu, J. (Creator), Fontaine, M. (Creator), Estallo, E. L. (Creator), Stein, M. (Creator), Livdahl, T. P. (Creator), Scaraffia, P. Y. (Creator), Carter, B. H. (Creator), Mogi, M. (Creator), Tuno, N. (Creator), Mains, J. W. (Creator), Medley, K. A. (Creator), Bowles, D. E. (Creator), Gill, R. J. (Creator), Eritja, R. (Creator), González-Obando, R. (Creator), Trang, H. T. T. (Creator), Boyer, S. (Creator), Abunyewa, A. M. (Creator), Hackett, K. (Creator), Wu, T. (Creator), Nguyễn, J. (Creator), Shen, J. (Creator), Zhao, H. (Creator), Crawford, J. E. (Creator), Armbruster, P. A. (Creator) & Caccone, A. (Creator), figshare, 15-Aug-2024

    Dataset

  • Additional file 7 of A genotyping array for the globally invasive vector mosquito, Aedes albopictus

    Cosme, L. V. (Creator), Corley, M. K. (Creator), Johnson, T. J. (Creator), Severson, D. W. (Creator), Yan, G. (Creator), Wang, X. (Creator), Beebe, N. W. (Creator), Maynard, A. J. (Creator), Bonizzoni, M. (Creator), Khorramnejad, A. (Creator), Martins, A. J. (Creator), Lima, J. B. P. (Creator), Munstermann, L. E. (Creator), Surendran, S. N. (Creator), Chen, C. (Creator), Maringer, K. (Creator), Wahid, I. (Creator), Mukherjee, S. (Creator), Xu, J. (Creator), Fontaine, M. (Creator), Estallo, E. L. (Creator), Stein, M. (Creator), Livdahl, T. P. (Creator), Scaraffia, P. Y. (Creator), Carter, B. H. (Creator), Mogi, M. (Creator), Tuno, N. (Creator), Mains, J. W. (Creator), Medley, K. A. (Creator), Bowles, D. E. (Creator), Gill, R. J. (Creator), Eritja, R. (Creator), González-Obando, R. (Creator), Trang, H. T. T. (Creator), Boyer, S. (Creator), Abunyewa, A. M. (Creator), Hackett, K. (Creator), Wu, T. (Creator), Nguyễn, J. (Creator), Shen, J. (Creator), Zhao, H. (Creator), Crawford, J. E. (Creator), Armbruster, P. A. (Creator) & Caccone, A. (Creator), figshare, 15-Aug-2024

    Dataset

  • Additional file 12 of A genotyping array for the globally invasive vector mosquito, Aedes albopictus

    Cosme, L. V. (Creator), Corley, M. K. (Creator), Johnson, T. J. (Creator), Severson, D. W. (Creator), Yan, G. (Creator), Wang, X. (Creator), Beebe, N. W. (Creator), Maynard, A. J. (Creator), Bonizzoni, M. (Creator), Khorramnejad, A. (Creator), Martins, A. J. (Creator), Lima, J. B. P. (Creator), Munstermann, L. E. (Creator), Surendran, S. N. (Creator), Chen, C. (Creator), Maringer, K. (Creator), Wahid, I. (Creator), Mukherjee, S. (Creator), Xu, J. (Creator), Fontaine, M. (Creator), Estallo, E. L. (Creator), Stein, M. (Creator), Livdahl, T. P. (Creator), Scaraffia, P. Y. (Creator), Carter, B. H. (Creator), Mogi, M. (Creator), Tuno, N. (Creator), Mains, J. W. (Creator), Medley, K. A. (Creator), Bowles, D. E. (Creator), Gill, R. J. (Creator), Eritja, R. (Creator), González-Obando, R. (Creator), Trang, H. T. T. (Creator), Boyer, S. (Creator), Abunyewa, A. M. (Creator), Hackett, K. (Creator), Wu, T. (Creator), Nguyễn, J. (Creator), Shen, J. (Creator), Zhao, H. (Creator), Crawford, J. E. (Creator), Armbruster, P. A. (Creator) & Caccone, A. (Creator), figshare, 15-Aug-2024

    Dataset