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Prénom : Michael C.
Equipe : ESV
Grade : CRCN
Adresse email : Cette adresse e-mail est protégée contre les robots spammeurs. Vous devez activer le JavaScript pour la visualiser.
Téléphone : (+33) 4 67 41 61 06
Fax : (+33) 4 67 41 62 99
Bureau : 130
Implantation : IRD Montpellier
Appartenance : CNRS
Thématique : Evolutionary genomics, Population genomics, Speciation, Gene flow, Adaptation, Ecological divergence, Anopheles ecological and evolutionary genomics, Bioinformatics.
Autre : Personal Website ORCID ID Google Scholar

Publications :

Ben Chehida Y, Thumloup J, Schumacher C, Harkins T, Aguilar A, Borrell A, Ferreira M, Rojas-Bracho L, Robertson KM, Taylor BL, Vikingsson GA, Weyna A, Romiguier J, Morin PA, Fontaine MC (2020) Mitochondrial genomics reveals the evolutionary history of the porpoises (Phocoenidae) across the speciation continuum. Scientific Reports 10: 15190 doi

Ben Chehida Y, Thumloup J, Vishnyakova K, Gol'din P, Fontaine MC (2020) Genetic homogeneity in the face of morphological heterogeneity in the harbor porpoise from the Black Sea and adjacent waters (Phocoena phocoena relicta). Heredity 124: 469-484 doi

Bergey CM, Lukindu M, Wiltshire RM, Fontaine MC, Kayondo JK, Besansky NJ (2020) Assessing connectivity despite high diversity in island populations of a malaria mosquito. Evolutionary Applications 13: 417-431 doi

Morin PA, Alexander A, Blaxter M, Caballero S, Fedrigo O, Fontaine MC, Foote AD, Kuraku S, Maloney B, McCarthy ML, McGowen MR, Mountcastle J, Nery MF, Olsen MT, Rosel PE, Jarvis ED (2020) Building genomic infrastructure: sequencing platinum-standard reference-quality genomes of all cetacean species. Marine Mammal Science 36: 1356-1366 doi

Bergey CM, Lukindu M, Whiltshire R.M, Fontaine MC, Kayondo J, Besansky NJ (2019) Assessing connectivity despite high diversity in island populations of the malaria mosquito Anopheles gambiae. bioRxiv 1-44 doi

Brinker P, Fontaine MC, Beukeboom LW, Salles JF (2019) Host, symbionts, and the microbiome: the missing tripartite interaction. Trends in Microbiology 27: 480-488 doi

Hoekendijk JPA, Spitz J, Read AJ, Leopold MF, Fontaine MC (2018) Resilience of harbor porpoises to anthropogenic disturbance: must they really feed continuously? Marine Mammal Science 34: 258-264 doi

Biard V, Gol'din P, Gladilina E, Vishnyakova K, McGrath K, Vieira FG, Wales N, Fontaine MC, Speller C, Olsen MT (2017) Genomic and proteomic identification of Late Holocene remains: setting baselines for Black Sea odontocetes. Journal of Archaeological Science-Reports 15: 262-271 doi

Chen MM, Fontaine MC, Ben Chehida Y, Zheng JS, Labbe F, Mei ZG, Hao YJ, Wang KX, Wu M, Zhao QZ, Wang D (2017) Genetic footprint of population fragmentation and contemporary collapse in a freshwater cetacean. Scientific Reports 7: 14449 doi

Damseaux F, Kiszka JJ, Heithaus MR, Scholl G, Eppe G, Thome JP, Lewis J, Hao WS, Fontaine MC, Das K (2017) Spatial variation in the accumulation of POPS and mercury in bottlenose dolphins of the Lower Florida Keys and the coastal Everglades (South Florida). Environmental Pollution 220: 577-587 doi

Fontaine MC, Thatcher O, Ray N, Piry S, Brownlow A, Davison NJ, Jepson P, Deaville R, Goodman SJ (2017) Mixing of porpoise ecotypes in southwestern UK waters revealed by genetic profiling. Royal Society Open Science 4: 160992 doi

Labbe F, Fontaine MC, Robin C, Dutech C (2017) Genetic signatures of variation in population size in a native fungal pathogen after the recent massive plantation of its host tree. Heredity 119: 402-410 doi

Miles A, Harding NJ, Botta G, Clarkson CS, Antao T, Kozak K, Schrider DR, Kern AD, Redmond S, Sharakhov I, Pearson RD, Bergey C, Fontaine MC, Donnelly MJ, Lawniczak MKN, Kwiatkowski DP, Ayala D, Besensky NJ, Burt A, Caputo B, della Torre A, Godfrey HCJ, Hahn MW, Midega J, Neafsey DE, O'Loughlin S, Pinto J, Riehle MM, Vernick KD, Weetman D, Wilding CS, White BJ, Troco AD, Diabate A, Costantini C, Rohatgi KR, Besansky NJ, Elissa N, Coulibaly B, Dinis J, Midegal J, Mbogo C, Bejon P, Mawejje HD, Stalker J, Rockett K, Drury E, Mead D, Jeffreys A, Hubbard C, Rowlands K, Isaacs AT, Jyothi D, Malangone C, Vauterin P, Jeffery B, Wright I, Hart L, Kluczyriski K, Cornelius V, MacInnisn B, Henrichs C, Giacomantonio R (2017) Genetic diversity of the African malaria vector Anopheles gambiae. Nature 552: 96-100 doi [- communiqué de presse IRD -]

Ryan SF, Fontaine MC, Scriber JM, Pfrender ME, O'Neil ST, Hellmann JJ (2017) Patterns of divergence across the geographic and genomic landscape of a butterfly hybrid zone associated with a climatic gradient. Molecular Ecology 26: 4725-4742 doi

Fontaine MC (2016) Harbour porpoises, Phocoena phocoena, in the Mediterranean Sea and adjacent regions: biogeographic relicts of the last glacial period. Advances in Marine Biology 75: 333-358 doi

Love RR, Steele AM, Coulibaly MB, Traore SF, Emrich SJ, Fontaine MC, Besansky NJ (2016) Chromosomal inversions and ecotypic differentiation in Anopheles gambiae: the perspective from whole-genome sequencing. Molecular Ecology 25: 5889-5906 doi

Botta F, Eriksen C, Fontaine MC, Guillot G (2015) Enhanced computational methods for quantifying the effect of geographic and environmental isolation on genetic differentiation. Methods in Ecology and Evolution 6: 1270-1277 doi

Fontaine MC, Pease JB, Steele A, Waterhouse RM, Neafsey DE, Sharakhov IV, Jiang XF, Hall AB, Catteruccia F, Kakani E, Mitchell SN, Wu YC, Smith HA, Love RR, Lawniczak MK, Slotman MA, Emrich SJ, Hahn MW, Besansky NJ (2015) Extensive introgression in a malaria vector species complex revealed by phylogenomics. Science 347: Unsp 1258524 doi

Neafsey DE, Waterhouse RM, Abai MR, Aganezov SS, Alekseyev MA, Allen JE, Amon J, Arca B, Arensburger P, Artemov G, Assour LA, Basseri H, Berlin A, Birren BW, Blandin SA, Brockman AI, Burkot TR, Burt A, Chan CS, Chauve C, Chiu JC, Christensen M, Costantini C, Davidson VLM, Deligianni E, Dottorini T, Dritsou V, Gabriel SB, Guelbeogo WM, Hall AB, Han MV, Hlaing T, Hughes DST, Jenkins AM, Jiang XF, Jungreis I, Kakani EG, Kamali M, Kemppainen P, Kennedy RC, Kirmitzoglou IK, Koekemoer LL, Laban N, Langridge N, Lawniczak MKN, Lirakis M, Lobo NF, Lowy E, MacCallum RM, Mao CH, Maslen G, Mbogo C, McCarthy J, Michel K, Mitchell SN, Moore W, Murphy KA, Naumenko AN, Nolan T, Novoa EM, O'Loughlin S, Oringanje C, Oshaghi MA, Pakpour N, Papathanos PA, Peery AN, Povelones M, Prakash A, Price DP, Rajaraman A, Reimer LJ, Rinker DC, Rokas A, Russell TL, Sagnon N, Sharakhova MV, Shea T, Simao FA, Simard F, Slotman MA, Somboon P, Stegniy V, Struchiner CJ, Thomas GWC, Tojo M, Topalis P, Tubio JMC, Unger MF, Vontas J, Walton C, Wilding CS, Willis JH, Wu YC, Yan GY, Zdobnov EM, Zhou XF, Catteruccia F, Christophides GK, Collins FH, Cornman RS, Crisanti A, Donnelly MJ, Emrich SJ, Fontaine MC, Gelbart W, Hahn MW, Hansen IA, Howell PI, Kafatos FC, Kellis M, Lawson D, Louis C, Luckhart S, Muskavitch MAT, Ribeiro JM, Riehle MA, Sharakhov IV, Tu ZJ, Zwiebel LJ, Besansky NJ (2015) Highly evolvable malaria vectors: The genomes of 16 Anopheles mosquitoes. Science. 347: 1258522 doi

Fontaine MC, Roland K, Calves I, Austerlitz F, Palstra FP, Tolley KA, Ryan S, Ferreira M, Jauniaux T, Llavona A, Ozturk B, Ozturk AA, Ridoux V, Rogan E, Sequeira M, Siebert U, Vikingsson GA, Borrell A, Michaux JR, Aguilar (2014) Postglacial climate changes and rise of three ecotypes of harbour porpoises, Phocoena phocoena, in western Palearctic waters. Molecular Ecology 23: 3306-3321 doi

Louis M, Fontaine MC, Spitz J, Schlund E, Dabin W, Deaville R, Caurant F, Cherel Y, Guinet C, Simon-Bouhet B (2014) Ecological opportunities and specializations shaped genetic divergence in a highly mobile marine top predator. Proceedings of the Royal Society of London, Series B 281: 20141558 doi

Steele A, Fontaine MC, Martin A, Emrich SJ (2014) Tools and methods derived from the anopheline 16 genome project. bioRxiv doi

Dussert Y, Remigereau MS, Fontaine MC, Snirc A, Lakis G, Stoeckel S, Langin T, Sarr A, Robert T (2013) Polymorphism pattern at a miniature inverted-repeat transposable element locus downstream of the domestication gene Teosinte-branched1 in wild and domesticated pearl millet. Molecular Ecology 22: 327-340 doi [- correction -]

Fontaine MC, Austerlitz F, Giraud T, Labbe F, Papura D, Richard-Cervera S, Delmotte F (2013) Genetic signature of a range expansion and leap-frog event after the recent invasion of Europe by the grapevine downy mildew pathogen Plasmopara viticola. Molecular Ecology 22: 2771-2786 doi

Fontaine MC, Gladieux P, Hood ME, Giraud T (2013) History of the invasion of the anther smut pathogen on Silene latifolia in North America. New Phytologist 198: 946-956 doi

Fontaine MC, Steele A, Emrich SJ, Smith HA, Hahn MW, Besansky NJ (2013) Complex speciation process in the Anopheles gambiae species complex revealed by whole genome sequencing. Pathogens and Global Health 107: 428-429

Neafsey DE, Christophides GK, Collins FH, Emrich SJ, Fontaine MC, Gelbart W, Hahn MW, Howell PI, Kafatos FC, Lawson D, Muskavitch MAT, Waterhouse RM, Williams LJ, Besansky NJ (2013) The evolution of the Anopheles 16 genomes project. G3-Genes Genomes Genetics 3: 1191-1194 doi

Alfonsi E, Hassani S, Carpentier FG, Le Clec'h JY, Dabin W, Van Canneyt O, Fontaine MC, Jung JL (2012) A European melting pot of harbour porpoise in the French atlantic coasts inferred from mitochondrial and nuclear data. PLoS One 7: e44425 doi

Charpentier MJE, Fontaine MC, Cherel E, Renoult JP, Jenkins T, Benoit L, Barthes N, Alberts SC, Tung J (2012) Genetic structure in a dynamic baboon hybrid zone corroborates behavioural observations in a hybrid population. Molecular Ecology 21: 715-731 doi

Fontaine MC, Snirc A, Frantzis A, Koutrakis E, Ozturk B, Ozturk AA, Austerlitz F (2012) History of expansion and anthropogenic collapse in a top marine predator of the Black Sea estimated from genetic data. Proceedings of the National Academy of Sciences USA 109: E2569-E2576 doi

Niedzialkowska M, Fontaine MC, Jedrzejewska B (2012) Factors shaping gene flow in red deer (Cervus elaphus) in seminatural landscapes of central Europe. Canadian Journal of Zoology 90: 150-162 doi

Ragon M, Fontaine MC, Moreira D, Lopez-Garcia P (2012) Different biogeographic patterns of prokaryotes and microbial eukaryotes in epilithic biofilms. Molecular Ecology 21: 3852-3868 doi

Sa-Pinto A, Branco MS, Alexandrino PB, Fontaine MC, Baird SJE (2012) Barriers to gene flow in the marine environment: insights from two common intertidal limpet species of the Atlantic and Mediterranean. PLoS One 7: e50330 doi

Ayala D, Fontaine MC, Cohuet A, Fontenille D, Vitalis R & Simard F (2011) Chromosomal inversions, natural selection and adaptation in the malaria vector Anopheles funestus. Molecular Biology and Evolution. 28: 745-758 doi pdf

Gladieux P, Vercken E, Fontaine MC, Hood ME, Jonot O, Couloux A, Giraud T (2011) Maintenance of fungal pathogen species that are specialized to different hosts: allopatric divergence and introgression through secondary contact. Molecular Biology and Evolution 28: 459-471 doi

Jauniaux T, Farnir F, Fontaine M, Kiszka J, Sarlet M, Coignoul F (2011) Cytochrome P450 1A1 expression in cetacean skin biopsies from the Indian Ocean. Marine Pollution Bulletin 62: 1317-1319 doi

Kiss L, Pintye A, Kovacs GM, Jankovics T, Fontaine MC, Harvey N, Xu XM, Nicot PC, Bardin M, Shykoff JA, Giraud T (2011) Temporal isolation explains host-related genetic differentiation in a group of widespread mycoparasitic fungi. Molecular Ecology 20: 1492-1507 doi

Remigereau MS, Lakis G, Rekima S, Leveugle M, Fontaine MC, Langin T, Sarr A, Robert T (2011) Cereal domestication and evolution of branching: evidence for soft selection in the Tb1 orthologue of pearl millet (Pennisetum glaucum L. R. BR.). PLoS One 6: e22404 doi

Aguileta G, Lengelle J, Marthey S, Chiapello H, Rodolphe F, Gendrault A, Yockteng R, Vercken E, Devier B, Fontaine MC, Wincker P, Dossat C, Cruaud C, Couloux A, Giraud T (2010) Finding candidate genes under positive selection in non-model species: examples of genes involved in host specialization in pathogens. Molecular Ecology 19: 292-306 doi

Fontaine MC, Tolley KA, Michaux JR, Birkun A, Ferreira M, Jauniaux T, Llavona A, Ozturk B, Ozturk AA, Ridoux V, Rogan E, Sequeira M, Bouquegneau JM, Baird SJE (2010) Genetic and historic evidence for climate-driven population fragmentation in a top cetacean predator: the harbour porpoises in European water. Proceedings of the Royal Society of London, Series B 277: 2829-2837 doi

Vercken E, Fontaine MC, Gladieux P, Hood ME, Jonot O, Giraud T (2010) Glacial refugia in pathogens: European genetic structure of anther smut pathogens on Silene latifolia and Silene dioica. PLoS Pathogens 6: e1001229 doi

Deffontaine V, Ledevin R, Fontaine MC, Quere JP, Renaud S, Libois R, Michaux JR (2009) A relict bank vole lineage highlights the biogeographic history of the Pyrenean region in Europe. Molecular Ecology 18: 2489-2502 doi

Janssens X, Fontaine MC, Michaux JR, Libois R, de Kermabon J, Defourny P, Baret PV (2008) Genetic pattern of the recent recovery of European otters in southern France. Ecography 31: 176-186 doi

Fontaine MC, Baird SJE, Piry S, Ray N, Tolley KA, Duke S, Birkun A, Ferreira M, Jauniaux T, Llavona A, Ozturk B, Ozturk AA, Ridoux V, Rogan E, Sequeira M, Siebert U, Vikingsson GA, Bouquegneau JM, Michaux JR (2007) Rise of oceanographic barriers in continuous populations of a cetacean: the genetic structure of harbour porpoises in old world waters. BMC Biology 5: 30 doi

Fontaine MC, Tolley KA, Siebert U, Gobert S, Lepoint G, Bouquegneau JM, Das K (2007) Long-term feeding ecology and habitat use in harbour porpoises Phocoena phocoena from Scandinavian waters inferred from trace elements and stable isotopes. BMC Ecology 7: 1 doi

Fontaine MC, Galan M, Bouquegneau JM, Michaux JR (2006) Efficiency of fluorescent multiplex polymerase chain reactions (PCRs) for rapid genotyping of harbour porpoises (Phocoena phocoena) with 11 microsatellite loci. Aquatic Mammals 32: 301-304 doi

Das K, Siebert U, Fontaine M, Jauniaux T, Holsbeek L, Bouquegneau JM (2004) Ecological and pathological factors related to trace metal concentrations in harbour porpoises Phocoena phocoena from the North Sea and adjacent areas. Marine Ecology Progress Series 281: 283-295 doi

Lepoint G, Dauby P, Fontaine M, Bouquegneau JM, Gobert S (2003) Carbon and nitrogen isotopic ratios of the seagrass Posidonia oceanica: depth-related variations. Botanica Marina 46: 555-561 doi