ECLECTIC - Ecological genomics of multi-species interactions

 03/04/2023 -  GQE
Understanding evolutionary forces underlying the adaptation of populations and the emergence of new species, at both short and long evolutionary timescales (domestication and wild species divergence, respectively)

Head :
Amandine Cornille (CNRS)

Welcome to Amandine Cornille Lab at the Génétique Quantitative and Evolution-Le Moulon, Univ. Paris Saclay!

We use combinations of various approaches (laboratory experiments, field work, modeling, molecular biology, population genetics and genomics) for contributing to our understanding of plant diversity and of how plants, and their associated symbionts (parasites, mutualists), evolve and adapt to their environment.

Amandine Cornille has been awarded of the CNRS Paoletti prize in 2020   for her outstanding research as a young scientist in the field of biology!!!

ECLECTIC is attached to the LabEx SPS   (Sciences des Plantes de Saclay) and to SEVE doctoral school   .

See how to join the lab at the end of this webpage!

MEMBERS

Amandine Cornille (she/her/hers) is a young CNRS scientist and group leader of the ECLECTIC team @CornilleAmand  

Anthony Venon (he/him/his) is an INRAE assistant engineer (background: Cellular and Molecular biology Master, Sorbonne University, Paris, France) who works on several projects, focusing on the development of new sequencing technology in the team.

Amandine Hansart (she/her/hers) is a CNRS engineer in agroecology. She organizes field work and vulgarization programs of the group on the wild and cultivated apple orchards.

(he/him/his) is a PhD candidate (Doctoral School “Plant Science” ED 567) on the ecological and genomic bases of local adaptation of a major apple pest, the rosy apple aphid, under the supervision of Amandine Cornille. He holds a Master in Science at the University of Tsukuba in Japan (2017-2019).

(he/him/his) is a postdoc supervised by Amandine Cornille, and works on the adaptive genomics of apple domestication, and before, he got his Ph.D. at Northwest A&F University, China.

Célia Lougmani (she/her/hers) is a PhD candidate (INRAE / CLAND, Doctoral School “Plant Science” ED 567) supervised by Amandine Cornille, Karine Alix and Véronique Decroocq (INRAE Bordeaux) on the adaptive genomics of apricot and almond domestications. She holds a Master in Ecology Biodiversity and Evolution at the Univ. Paris Saclay, France.

Yuqi Nie (he/him/his) is a PhD candidate (Chinese Science Council, Doctoral School “Plant Science” ED 567) supervised by Amandine Cornille, on the adaptive genomics of fruit tree domestication.

Ronan Dodole (he/him/his) is a bioinformatician Master 2 intern (University of Rennes, France), carrying out his master 2 internship on the adaptive role of transposable elements in response to biotic stress, using the apple tree-aphid interaction as a model. He is supervised by Amandine Cornille, Amandine Hansart and Xilong Chen.

Aurélie Mesnil (she/her/hers) is a postdoc working of the genomics of adaptation of fruit trees using population genomics. She got her Ph.D. at IFREMER-ASIM / IHPE, France.

Maxime Criado (he, him, his) is a master 2 student in bioinformatics (université Paris Saclay, France) working for his master 2 internship in the demonstration of co-evolved genes between apple trees and aphids. Amandine Cornille and Xilong Chen supervise him.

FUNDING

Fondation BNP Paribas 2023-2026: FRUITRESCUE

Fondation de la Recherche pour la Biodiversité

ANR JCJC 2021-2025: Population genomics of TEs in trees (PLEASURE).

IDEEV 2021: Role of TEs in the responses of fruit trees to abiotic and biotic stresses

La Diagonale “Coup de pouce” 2020   “Ya comme un pépin pour la planète”

ECOTRON project 2020-2021 : Impact of climate changes on apples [http://www.cereep.ens.fr/spip.php?article9&lang=fr]

ATIP-Avenir 2019-2021: Genomic bases of local adaptation in plant-pest interactions: insights from the cultivated apple and its aphid pests.

Projet européen INTERREG France-Wallonie-Vlaanderen « PROVERBIO 2019-2022: “Protection des vergers par lutte biologique : une sélection adaptée des auxiliaires”", avec le soutien du Fonds européen de développement régional, Met steun van het Europees Fonds voor Regionale Ontwikkeling

La Diagonale “Coup de pouce” 2019   “Ya comme un pépin”

IDEEV 2020: On the genomic bases of adaptation in the aphid-bacteria interaction.

European LEADER project: Building a wild apple orchad on the Saclay plateau.

IDEEV 2017 and 2018: Assembling de novo genome of a major aphid fruit tree pest

LabEX Biodiversity Agrosystem Climate and Society Emergence project 2016-2018 “Impact of domestication of pest adaptation to fruit trees”.

COLLABORATORS

Karine Alix, AgroParisTech, France

Arnaud Lemarquand and Frédérique Didelot at Unité expérimentale horticale INRAE (UEH)   , France

Camille Meslin   , iEES, France

Emmanuelle Jacquin-Joly   , iEES, France

Fabrice Legeai   , INRAE, Rennes, France

Véronique Decroocq   , INRAE, Bordeaux, France

Yann Bourgeois   , Porthmouth University, UK

David Chagné   , The New Zealand Institute for Plant & Food Research, NZ

Stéphane Bazot   , Univ. Paris Saclay, France

Dominique Lavenier   , INRIA, Rennes, France

Tatiana Giraud   , Univ. Paris Saclay, France

Maud Tenaillon, Univ. Paris Saclay

Ammar Alhmedi and Tim Bellien   , PC-Fruit, Belgium

Enrique Dapena   and Marcos Minarros   , SERIDA, Asturias, Spain

Jia-Long Yao , The New Zealand Institute for Plant & Food Research Limited, Auckland

Clément Lafon-Placette   , Univ. Charles, Pragues, Czech Republic

Hamed Yousefzadeh, Univ. Tarbiat Modares, Iran

JOIN THE ECLECTIC LAB

We are always on the lookout for excellent students and postdocs to join the lab!

You are in the right place if you are passionate about questions in ecology, evolution, genomics, together with the applied consequences of the finding. Interested prospective bachelor, Master, PhD students or postdocs should first send Amandine Cornille their CV and a brief description of your research interests and background, career goals, and why you are interested in joining the Amandine Cornille Lab.

CONTACT

Génétique Quantitative et Évolution - Le Moulon
Ferme du Moulon
F-91190 Gif-sur-Yvette
e-mail : amandine.cornille[at]inrae.fr or amandine.cornille[at]universite-paris-saclay.fr
Phone: + 33 1 69 33 23 52
Google Scholar profile  
Research Gate  
ORCID  
Twitter : [@CornilleAmand] & [@PommierVerger]

Members

• Amandine Cornille, Group leader (CNRS)
• Amandine Hansart, (INRAE)
• Anthony Venon, (INRAE)

Publications

• Bina H., Yousefzadeh H., Venon A. , Remoué C., Rousselet A., Falque M., Faramarzi S., Chen X., Samanchina J., Gill D., Kabaeva A., Giraud T., Hosseinpour B., Abdollahi H., Gabrielyan I., Nersesyan A., Cornille A. . (2022) Evidence of an additional centre of apple domestication in Iran, with contributions from the Caucasian crab apple Malus orientalis Uglitzk. to the cultivated apple gene pool. Molecular Ecology, 21 (31) 5581-5601
• Chen X., Cornille A. , An H., Xing L., Ma J., Zhao C., Wang Y., Han M., Dong Z.. (2022) The East Asian wild apples, Malus baccata (L.) Borkh and Malus hupehensis (Pamp.) Rehder., are additional contributors to the genomes of cultivated European and Chinese varieties. Molecular Ecology, (accepted)
• Cornille A. , Ebert D., Stukenbrock E., Rodríguez de la Vega RC., Tiffin P., Croll D., Tellier A.. (2022) Unraveling coevolutionary dynamics using ecological genomics. Trends in Genetics, (accepted)
• Brisou G., Piquerez SJM., Minoia S., Marcel F., Cornille A. , Carriero F., Boualem A., Bendahmane A., Vicente A.. (2021) Induced mutations in SlE8 and SlACO1 control tomato fruit maturation and shelf-life. Journal of Experimental Botany, 20 (72) 6920-6932
• Chen X., Cornille A. , An N., Xing L., Ma J., Zhao C., Wang Y., Han M., Zhang D.. (2021) The Siberian wild apple is an additional contributor to the genome of the cultivated European and Chinese apple. bioRxiv,
• Denoirjean T., Doury G., Cornille A. , Chen X., Hance T., Ameline A.. (2021) Genetic structure of Malus sylvestris and potential link with preference/performance by the rosy apple aphid pest Dysaphis plantaginea. Sci Rep, 1 (11) 5732
• Groppi A., Liu S., Cornille A. , Decroocq S., Bui QT., Tricon D., Cruaud C., Arribat S., Belser C., Marande W., Salse J., Huneau C., Rodde N., Rhalloussi W., Cauet S., Istace B., Denis E., Carrère S., Audergon JM., Roch G., Lambert P., Zhebentyayeva T., Liu WS., Bouchez O., Lopez-Roques C., Serre RF., Debuchy R., Tran J., Wincker P., Chen X., Pétriacq P., Barre A., Nikolski M., Aury JM., Abbott AG., Giraud T., Decroocq V.. (2021) Population genomics of apricots unravels domestication history and adaptive events. Nat Commun, 1 (12) 3956
• Koupilová K., Koubek T., Cornille A. , Janovský Z.. (2021) Local maladaptation of the anther-smut fungus parasitizing Dianthus carthusianorum. European Journal of Plant Pathology, 2 (160) 365-374
• Olvera-Vazquez SG., Alhmedi A., Miñarro M., Shykoff JA., Marchadier E., Rousselet A., Remoué C., Gardet R., Degrave A., Robert P., Chen X., Porchier J., Giraud T., Vander-Mijnsbrugee K., Raffoux X., Falque M., Alins G., Didelot F., Beliën T., Dapena E., Lemarquand A., Cornille A. . (2021) Experimental test for local adaptation of the rosy apple aphid (Dysaphis plantaginea) to its host (Malus domestica) and to its climate in Europe. PCI Ecology, (Pre-registration version)
• Olvera-Vazquez SG., Remoué C., Venon A. , Rousselet A., Grandcolas O., Azrine M., Momont L., Galan M., Benoit L., David GM., Alhmedi A., Beliën T., Alins G., Franck P., Haddioui A., Jacobsen SK., Andreev R., Simon S., Sigsgaard L., Guibert E., Tournant L., Gazel F., Mody K., Khachtib Y., Roman A., Ursu TM., Zakharov IA., Belcram H., Harry M., Roth M., Simon JC., Oram S., Ricard JM., Agnello A., Beers EH., Engelman J., Balti I., Salhi-Hannachi A., Zhang H., Tu H., Mottet C., Barrès B., Degrave A., Razmjou J., Giraud T., Falque M., Dapena E., Miñarro M., Jardillier L., Deschamps P., Jousselin E., Cornille A. . (2021) Large-scale geography survey provides insights into the colonization history of a major aphid pest on its cultivated apple host in Europe, North America and North Africa. Peer Community Journal, (1)
• İltaş Ömer., Svitok M., Cornille A. , Schmickl R., Lafon Placette C.. (2021) Early evolution of reproductive isolation: A case of weak inbreeder/strong outbreeder leads to an intraspecific hybridization barrier in Arabidopsis lyrata. Evolution, 6 (75) 1466-1476