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Michael Fontaine

Chargé de recherche du CNRS dans l'UMR MIVEGEC, Montpellier, France. | Prof. honoraire au Groningen Institute for Evolutionary Life Sciences (GELIFES), U. Groningen, Pays Bas.
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Présentation

**MIVEGEC [UMR CNRS / U. Montpellier / IRD]** Institut de Recherche pour le Développement 911, Avenue Agropolis, BP 64501 34394 Montpellier Cedex 5, France Tel: +33-(0)4 67 41 61 06 Email: <michael.fontaine@cnrs.fr> **Groningen Institute for Evolutionary Life Sciences (GELIFES)** University of Groningen Nijenborgh 7 9747 AG Groningen The Netherlands Email: <m.c.fontaine@rug.nl>
**MIVEGEC [UMR CNRS / U. Montpellier / IRD]** Institut de Recherche pour le Développement 911, Avenue Agropolis, BP 64501 34394 Montpellier Cedex 5, France Tel: +33-(0)4 67 41 61 06 Email: <michael.fontaine@cnrs.fr> **Groningen Institute for Evolutionary Life Sciences (GELIFES)** University of Groningen Nijenborgh 7 9747 AG Groningen The Netherlands Email: <m.c.fontaine@rug.nl>

Compétences

Bioinformatics Molecular Ecology and Evolution Statistical genetics Phylogenetics/genomics Population genetics/genomics Computational biology Data sciences FAIR principles

Publications

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Standing genetic variation and chromosome differences drove rapid ecotype formation in a major malaria vector

Scott T Small , Carlo Costantini , N’fale Sagnon , Moussa W Guelbeogo , Scott J Emrich
Proceedings of the National Academy of Sciences of the United States of America, 2023, 120 (11), ⟨10.1073/pnas.2219835120⟩
Article dans une revue hal-03871937v2
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Models based on best-available information support a low inbreeding load and potential for recovery in the vaquita

Christopher Kyriazis , Jacqueline Robinson , Sergio Nigenda-Morales , Annabel Beichman , Lorenzo Rojas-Bracho
Heredity, 2023, 130, pp.183-187. ⟨10.1038/s41437-023-00608-7⟩
Article dans une revue hal-04047612v1
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A comparison of genomic diversity and demographic history of the North Atlantic and Southwest Atlantic southern right whales

Carla A Crossman , Michael C. Fontaine , Timothy R Frasier
Molecular Ecology, inPress, ⟨10.1111/mec.17099⟩
Article dans une revue hal-04299475v1
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Harbor porpoise losing its edges: genetic time series suggests a rapid population decline in Iberian waters over the last 30 years

Yacine Ben Chehida , Tjibbe Stelwagen , Jeroen P A Hoekendijk , Marisa Ferreira , Catarina Eira
Ecology and Evolution, inPress, ⟨10.1101/2021.08.19.456945⟩
Article dans une revue hal-03415287v2
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Ancient dolphin genomes reveal rapid repeated adaptation to coastal waters

Marie Louis , Petra Korlević , Milaja Nykänen , Frederick Archer , Simon Berrow
Nature Communications, 2023, 14 (1), pp.4020. ⟨10.1038/s41467-023-39532-z⟩
Article dans une revue hal-04300188v1
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Population genomic evidence of adaptive response during the invasion history of Plasmodium falciparum in the Americas

Margaux J M Lefebvre , Josquin Daron , Eric Legrand , Michael C. Fontaine , Virginie Rougeron
Molecular Biology and Evolution, 2023, 40 (5), pp.msad082. ⟨10.1093/molbev/msad082⟩
Article dans une revue hal-03836777v2
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Global flyway evolution in red knots Calidris canutus and genetic evidence for a Nearctic refugium

Jesse R Conklin , Yvonne I Verkuil , Philip Battley , Chris J Hassell , Job Ten Horn
Molecular Ecology, 2022, 31 (7), pp.2124-2139. ⟨10.1111/mec.16379⟩
Article dans une revue hal-03408091v2
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The critically endangered vaquita is not doomed to extinction by inbreeding depression

Jacqueline Robinson , Christopher Kyriazis , Sergio Nigenda-Morales , Annabel Beichman , Lorenzo Rojas-Bracho
Science, 2022, 376 (6593), pp.635-639. ⟨10.1126/science.abm1742⟩
Article dans une revue hal-03748473v1
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Evolutionary history of Plasmodium vivax and Plasmodium simium in the Americas

Virginie Rougeron , Josquin Daron , Michael C. Fontaine , Franck Prugnolle
Malaria Journal, 2022, 21 (1), pp.141. ⟨10.1186/s12936-022-04132-7⟩
Article dans une revue hal-03748455v1
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Microbiome composition is shaped by geography and population structure in the parasitic wasp Asobara japonica , but not in the presence of the endosymbiont Wolbachia

Pina Brinker , Fangying Chen , Yacine Ben Chehida , Leo Beukeboom , Michael C. Fontaine
Molecular Ecology, 2022, ⟨10.1111/mec.16699⟩
Article dans une revue hal-03782865v1
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Reticulated evolution marks the rapid diversification of the Delphinoidae

Michael C. Fontaine
Peer Community In Evolutionary Biology, 2022, ⟨10.24072/pci.evolbiol.100139⟩
Article dans une revue hal-03748477v1
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Resistance to pirimiphos-methyl in West African Anopheles is spreading via duplication and introgression of the Ace1 locus

Xavier Grau-Bové , Eric Lucas , Dimitra Pipini , Emily Rippon , Arjèn Van’t Hof
PLoS Genetics, 2021, 17 (1), pp.e1009253. ⟨10.1371/journal.pgen.1009253⟩
Article dans une revue hal-02915392v1
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Genetic variation at the Cyp6m2 putative insecticide resistance locus in Anopheles gambiae and Anopheles coluzzii

Martin G Wagah , Petra Korlević , Christopher Clarkson , Alistair Miles , Mara K N Lawniczak
Malaria Journal, 2021, 20 (1), pp.234. ⟨10.1186/s12936-021-03757-4⟩
Article dans une revue hal-03861207v1
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Habitat segregation of plate phenotypes in a rapidly expanding population of three-spined stickleback

Britas Klemens Eriksson , Casey Yanos , Sarah Bourlat , Serena Donadi , Michael C. Fontaine
Ecosphere, 2021, 12 (6), pp.e03561. ⟨10.1002/ecs2.3561⟩
Article dans une revue hal-02915393v1
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The genetic architecture of target‐site resistance to pyrethroid insecticides in the African malaria vectors Anopheles gambiae and Anopheles coluzzii

Chris Clarkson , Alistair Miles , Nicholas Harding , Andrias O’reilly , David Weetman
Molecular Ecology, 2021, ⟨10.1111/mec.15845⟩
Article dans une revue hal-03420486v1
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Predator biomass and vegetation influence the coastal distribution of threespine stickleback morphotypes

Casey L Yanos , Eeke P Haanstra , Fiona Colgan Carey , Sorsha A Passmore , Johan S Eklöf
Ecology and Evolution, 2021, 11 (18), pp.12485-12496. ⟨10.1002/ece3.7993⟩
Article dans une revue hal-03408086v1
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Population genomic evidence of Plasmodium vivax Southeast Asian origin

J. Daron , A. Boissiere , L. Boundenga , B. Ngoubangoye , S. Houze
Science Advances , 2021, 7, pp.eabc3713. ⟨10.1126/sciadv.abc3713⟩
Article dans une revue hal-02915422v1
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Discovery of Ongoing Selective Sweeps within Anopheles Mosquito Populations Using Deep Learning

Alexander Xue , Daniel Schrider , Andrew Kern , Alessandra Della Torre , Beniamino Caputo
Molecular Biology and Evolution, 2021, 38 (3), pp.1168-1183. ⟨10.1093/molbev/msaa259⟩
Article dans une revue hal-03420515v1
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Europe as a bridgehead in the worldwide invasion history of grapevine downy mildew, Plasmopara viticola

Michaël Fontaine , Frédéric Labbé , Yann Dussert , Laurent Delière , Sylvie Richart-Cervera
Current Biology - CB, 2021, 31 (10), pp.2155-2166.e4. ⟨10.1016/j.cub.2021.03.009⟩
Article dans une revue hal-03184119v1
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No leading-edge effect in North Atlantic harbor porpoises: Evolutionary and conservation implications

Yacine Ben Chehida , Roisin Loughnane , Julie Thumloup , Kristin Kaschner , Cristina Garilao
Evolutionary Applications, 2021, 14 (6), pp.1588-1611. ⟨10.1111/eva.13227⟩
Article dans une revue hal-03015895v1
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Selection on ancestral genetic variation fuels repeated ecotype formation in bottlenose dolphins

Marie Louis , M Galimberti , Frederick Archer , Simon Berrow , Andrew Brownlow
Science Advances , 2021, 7, pp.eabg1245. ⟨10.1126/sciadv.abg1245⟩
Article dans une revue hal-03020428v1
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Population structure in a continuously distributed coastal marine species, the harbor porpoise, based on microhaplotypes derived from poor quality samples

Phillip A. Morin , Brenna R. Forester , Karin A. Forney , Carla A. Crossman , Brittany L. Hancock-Hanser
Molecular Ecology, 2021, 30 (6), pp.1457-1476. ⟨10.1111/mec.15827⟩
Article dans une revue hal-03088621v1
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Genome variation and population structure among 1,142 mosquitoes of the African malaria vector species Anopheles gambiae and Anopheles coluzzii

Chris C.S. Clarkson , Alistair Miles , Nicholas J Harding , Eric R Lucas , C J Battey
Genome Research, 2020, 30 (10), pp.1533-1546. ⟨10.1101/gr.262790.120⟩
Article dans une revue hal-02446284v1
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Evolution of the Insecticide Target Rdl in African Anopheles Is Driven by Interspecific and Interkaryotypic Introgression

Xavier Grau-Bové , Sean Tomlinson , Andrias O’reilly , Nicholas Harding , Alistair Miles
Molecular Biology and Evolution, 2020, 37 (10), pp.2900-2917. ⟨10.1093/molbev/msaa128⟩
Article dans une revue hal-02915420v1
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Building genomic infrastructure: Sequencing platinum-standard reference-quality genomes of all cetacean species

Phillip A. Morin , Alana Alexander , Mark Blaxter , Susana Caballero , Olivier Fedrigo
Marine Mammal Science, 2020, ⟨10.1111/mms.12721⟩
Article dans une revue hal-03020344v1
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Is Iberian harbour porpoise (Phocoena phocoena) threatened by interactions with fisheries?

Graham J Pierce , Caroline Weir , Paula Gutierrez , Gregg Verutes , Michael C. Fontaine
IWC Scientific Committee Paper , 2020, pp.SC/68B/SM/04 Rev2
Article dans une revue hal-03420827v1
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Mitochondrial genomics reveals the evolutionary history of the porpoises (Phocoenidae) across the speciation continuum.

Yacine Ben Chehida , Julie Thumloup , Cassie Schumacher , Timothy Harkins , Alex Aguilar
Scientific Reports, 2020, 10 (1), pp.15190. ⟨10.1038/s41598-020-71603-9⟩
Article dans une revue hal-03020351v1
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Radiation with reticulation marks the origin of a major malaria vector

Scott T. Small , Frédéric Labbé , Neil F. Lobo , Lizette L. Koekemoer , Chadwick H. Sikaala
Proceedings of the National Academy of Sciences of the United States of America, 2020, 117 (50), pp.31583-31590. ⟨10.1073/pnas.2018142117⟩
Article dans une revue hal-03088085v1
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Genetic homogeneity in the face of morphological heterogeneity in the harbor porpoise from the Black Sea and adjacent waters (Phocoena phocoena relicta)

Yacine Ben Chehida , Julie Thumloup , Karina Vishnyakova , Pavel Gol’din , Michael C. Fontaine
Heredity, 2020, 124 (3), pp.469-484. ⟨10.1038/s41437-019-0284-1⟩
Article dans une revue hal-02915495v1
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Assessing connectivity despite high diversity in island populations of a malaria mosquito

Christina M. Bergey , Martin Lukindu , Rachel Wiltshire , Michael C. Fontaine , Jonathan Kayondo
Evolutionary Applications, 2020, 13 (2), pp.417-431. ⟨10.1111/eva.12878⟩
Article dans une revue hal-02915424v1
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In Silico Karyotyping of Chromosomally Polymorphic Malaria Mosquitoes in the Anopheles gambiae Complex

R. Rebecca Love , Seth Redmond , Marco Pombi , Beniamino Caputo , Vincenzo Petrarca
G3, 2019, 9 (10), pp.3249-3262. ⟨10.1534/g3.119.400445⟩
Article dans une revue hal-02915499v1
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Host, Symbionts, and the Microbiome: The Missing Tripartite Interaction

Pina Brinker , Michael C. Fontaine , Leo Beukeboom , Joana Falcão Salles
Trends in Microbiology, 2019, ⟨10.1016/j.tim.2019.02.002⟩
Article dans une revue hal-02104428v1
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Population structure, connectivity, and demographic history of an apex marine predator, the bull shark Carcharhinus leucas

Agathe Pirog , Virginie Ravigné , Michael C. Fontaine , Adrien Rieux , Aude Gilabert
Ecology and Evolution, 2019, 9 (23), pp.12980-13000. ⟨10.1002/ece3.5597⟩
Article dans une revue hal-02915501v1
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Whole-genome sequencing reveals high complexity of copy number variation at insecticide resistance loci in malaria mosquitoes

Eric Lucas , Alistair Miles , Nicholas Harding , Chris Clarkson , Mara K.N. Lawniczak
Genome Research, 2019, 29 (8), pp.1250-1261. ⟨10.1101/gr.245795.118⟩
Article dans une revue hal-02915503v1

Resilience of harbor porpoises to anthropogenic disturbance: Must they really feed continuously?

Jeroen Hoekendijk , Jérôme Spitz , Andrew Read , Mardik Leopold , Michael C. Fontaine
Marine Mammal Science, 2018, 34 (1), pp.258-264. ⟨10.1111/mms.12446⟩
Article dans une revue hal-02915504v1

Patterns of divergence across the geographic and genomic landscape of a butterfly hybrid zone associated with a climatic gradient

Sean Ryan , Michael C. Fontaine , J. Mark Scriber , Michael Pfrender , Shawn O'Neil
Molecular Ecology, 2017, 26 (18), pp.4725-4742. ⟨10.1111/mec.14236⟩
Article dans une revue hal-02915518v1
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Mixing of porpoise ecotypes in southwestern UK waters revealed by genetic profiling

Michael C. Fontaine , Oliver Thatcher , Nicolas Ray , Sylvain Piry , Andrew Brownlow
Royal Society Open Science, 2017, 4 (3), ⟨10.1098/rsos.160992⟩
Article dans une revue hal-01602775v1

Spatial variation in the accumulation of POPs and mercury in bottlenose dolphins of the Lower Florida Keys and the coastal Everglades (South Florida)

France Damseaux , Jérémy Kiszka , Michael R Heithaus , George Scholl , Gauthier Eppe
Environmental Pollution, 2017, 220, pp.577-587. ⟨10.1016/j.envpol.2016.10.005⟩
Article dans une revue hal-02915882v1

Genomic and proteomic identification of Late Holocene remains: Setting baselines for Black Sea odontocetes

Vincent Biard , Pavel Gol'Din , Elena Gladilina , Karina Vishnyakova , Krista Mcgrath
Journal of Archaeological Science: Reports, 2017, 15, pp.262-271. ⟨10.1016/j.jasrep.2017.07.008⟩
Article dans une revue hal-02915879v1

Genetic signatures of variation in population size in a native fungal pathogen after the recent massive plantation of its host tree

F Labbé , Michael C. Fontaine , C. Robin , C. Dutech
Heredity, 2017, 119 (6), pp.402-410. ⟨10.1038/hdy.2017.58⟩
Article dans une revue hal-02915508v1

Genetic diversity of the African malaria vector Anopheles gambiae

Alistair Miles , Nicholas J Harding , Giordano Botta , Chris S Clarkson , Tiago Antão
Nature, 2017, 552 (7683), pp.96-100. ⟨10.1038/nature24995⟩
Article dans une revue hal-02915878v1
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Genetic footprint of population fragmentation and contemporary collapse in a freshwater cetacean

Minmin Chen , Michael C. Fontaine , Yacine Ben Chehida , Jinsong Zheng , Frédéric Labbe
Scientific Reports, 2017, 7 (1), pp.14449. ⟨10.1038/s41598-017-14812-z⟩
Article dans une revue hal-02915513v1

Harbour Porpoises, Phocoena phocoena, in the Mediterranean Sea and Adjacent Regions: Biogeographic Relicts of the Last Glacial Period

Michael C. Fontaine
Advances in Marine Biology, 2016, 75, pp.333-358. ⟨10.1016/bs.amb.2016.08.006⟩
Article dans une revue hal-02915884v1

Chromosomal inversions and ecotypic differentiation in Anopheles gambiae : the perspective from whole-genome sequencing

R. Rebecca Love , Aaron Steele , Mamadou Lamine Coulibaly , Sékou F Traoré , Scott Emrich
Molecular Ecology, 2016, 25 (23), pp.5889-5906. ⟨10.1111/mec.13888⟩
Article dans une revue hal-02915883v1

Scaffold assembly based on genome rearrangement analysis

Sergey Aganezov , Nadia Sitdykova , Max Alekseyev , The Anopheles Gambiae Consortium (including Michael C Fontaine)
Computational Biology and Chemistry, 2015, 57, pp.46-53. ⟨10.1016/j.compbiolchem.2015.02.005⟩
Article dans une revue hal-02915885v1

Postglacial climate changes and rise of three ecotypes of harbour porpoises, Phocoena phocoena, in western Palearctic waters.

Michaël C Fontaine , Kathleen Roland , Isabelle Calves , Frederic Austerlitz , Friso P Palstra
Molecular Ecology, 2014, 23 (13), pp.3306-21. ⟨10.1111/mec.12817⟩
Article dans une revue hal-01019023v1

Ecological opportunities and specializations shaped genetic divergence in a highly mobile marine top predator

Louis Marie , Michael C. Fontaine , Jérôme Spitz , Schlund Erika , Willy Dabin
Proceedings of the Royal Society B: Biological Sciences, 2014, 281, pp.20141558. ⟨10.1098/rspb.2014.1558⟩
Article dans une revue hal-01075773v1
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A European Melting Pot of Harbour Porpoise in the French Atlantic Coasts Inferred from Mitochondrial and Nuclear Data

Eric Alfonsi , Sami Hassani , François-Gilles Carpentier , Jean-Yves Le Clec'H , Willy Dabin
PLoS ONE, 2012, 7 (9), pp.e44425. ⟨10.1371/journal.pone.0044425.t001⟩
Article dans une revue hal-01066281v1
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Chromosomal Inversions, Natural Selection and Adaptation in the Malaria Vector Anopheles funestus

Diego Ayala , Michael C. Fontaine , Anna Cohuet , Didier Fontenille , Renaud Vitalis
Molecular Biology and Evolution, 2011, 28 (1), pp.745-758. ⟨10.1093/molbev/msq248⟩
Article dans une revue hal-02651247v1
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Cytochrome P450 1A1 expression in cetacean skin biopsies from the Indian Ocean

Thierry Jauniaux , Frédéric Farnir , Michaël Fontaine , Jeremy Kiszka , Michael Sarlet
Marine Pollution Bulletin, 2011, 62 (6), pp.1317-1319. ⟨10.1016/j.marpolbul.2011.04.005⟩
Article dans une revue hal-00608678v1