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Ecology and Genetics for Conservation and Restauration team & Genomic Facility of Bordeaux

Olivier Lepais

UMR 1202 Biodiversité Gènes & Communautés
INRA
69 route d'Arcachon
33610 CESTAS – France

Tel : +33 (0)5 35 38
Fax: +33 (0)5 35 38 53 81

Courriel : olivier.lepais_at_inra.fr

Twitter: @olepais

Employment history & academic achievements

2019 – present: Director of Science of the Genomic & Transcriptomic Facility of Bordeaux (PGTB) [link: https://pgtb.cgfb.u-bordeaux.fr/en]

2018 - present: Research scientist, INRA, UMR 1202 BIOGECO, France.

2011-2018: Research scientist, INRA, UMR 1224 ECOBIOP, France.

2010-2011: Research Fellow of the Leverhulme Trust, Early Career Fellowship, Biological and Environmental Sciences, University of Stirling, United Kingdom.

2008-2010: Postdoctoral Research Assistant, Biological and Environmental Sciences, University of Stirling, United Kingdom.

2008: Teaching Fellow, Université de Bordeaux, France.

2008: PhD in Evolutionary, Functional and Community Ecology, Université de Bordeaux, France.

Title: Dynamique d'hybridation dans le complexe d'espèces des chênes blancs européens (supervised by S. Gerber et A. Kremer). [link: http://www.theses.fr/129616028]

Research interests

My research interests are organised around two main themes:

• Studying the impact of hybridization on species invasion and succession processes, with a focus on the effect of environmental factors on reproductive isolation.
• Understanding the relative effects of environmental changes and species ecology on the structuration of biological diversity at both the population (genetic diversity) and community levels (species diversity).

I am particularly interested in the development of methodological tools and knowledge exchange in biodiversity management and conservation, and have worked on a range of species of plants, insects and vertebrates of ecological and economic interest.

Over the last 10 years, I have developed a strong interest in bioinformatics and computational biology to make best use of high-throughput sequencing technologies for the study of biodiversity. In particular, I am very kin to apply new inferential methods to link observed patterns of diversity in populations and processes that generate them.

Current and recent funded projects

DunBioDiv: From gene to ecosystem: multilevel structure of biological diversity across environmental gradients in the Atlantic coastal sand dune plant community, coord. O Lepais, funding from the LabEx COTE (2019-2021).

Hybridization between Alosa alosa and Alosa fallax: causes and consequences for the conservation of the European shad species, coord. O Lepais part of a multidisciplinary research project on shad species conservation, PI : F Daverat (IRSTEA EABX), funded by the Région Nouvelle-Aquitaine & Agence de l’Eau Adour Garonne (2016-2020).

NombReEff : Estimation of the effective number of breeders as a new tool for population monitoring, coord. O Lepais, founding from the Agence Française pour la Biodiversité, Fiche Action 221_A13 pole Gest’Aqua AFB-INRA (2016-2017).

TrackNat : DNA-based traceability for natural resources management applied to forest tree and fish species, coord. R Petit, funded by the Région Aquitaine 2015-1R20301-00005174 (2016-2018).

GenEarly: Genetic determination of early male parr maturation in Atlantic salmon natural populations, coord. O Lepais, Marie Curie Career Integration Grant, Commission Européenne PCIG10-GA-2011-30352 (2012-216).

Connectivity of alder riparian woodlands, coord. O Lepais, funding from the Leverhulme Trust Eearly Career Fellowship ECF/2010/0166 (2010-2011).

Selected publications

Full list available here.

Lepais O, Chancerel E, Boury C, Salin F, Manicki A, Taillebois L, Dutech C, Aissi A, Bacles CFE, Daverat F, Launey S, Guichoux E (2020) Fast sequence-based microsatellite genotyping development workflow. PeerJ, 8:e9085, doi: 10.7717/peerj.9085

Taillebois L, Sabatino S, Manicki A, Daverat F, Nachón DJ, Lepais O (2020) Variable outcomes of hybridization between declining Alosa alosa and Alosa fallax. Evolutionary Applications, 13:636-651. doi: 10.1111/eva.12889

Bacles CFE, Bouchard C, Lange F, Manicki A, Tentelier C, Lepais O (2018) Estimating the effective number of breeders from single parr samples for conservation monitoring of wild populations of Atlantic salmon Salmo salar. Journal of Fish Biology, Online Early, doi: 10.1111/jfb.13537.

Lepais O, Manicki A, Glise S, Buoro M, Bardonnet A (2017) Genetic architecture of threshold reaction norms for male alternative reproductive tactics in Atlantic salmon (Salmo salar L.). Scientific Reports, 7 :43552.

Lepais O, Weir JT (2014) SimRAD: an R package for simulation‐based prediction of the number of loci expected in RADseq and similar genotyping by sequencing approaches. Molecular Ecology Resources, 14:1314-1321.

Lepais O, Muller SD, Ben Saad-Limam S, Benslama M, Rhazi L, Belouahem-Abed D, Daoud-Bouattour A, Gammar AM, Ghrabi-Gammar Z, Bacles CFE (2013) High genetic diversity and distinctiveness of rear-edge climate relicts maintained by ancient tetraploidisation for Alnus glutinosa. PLoS ONE, 8:e75029.

Lye GC, Lepais O, Goulson D (2011) Reconstructing demographic events from population genetic data: the introduction of bumblebees to New Zealand. Molecular Ecology, 20:2888-2900.

Lepais O, Gerber S (2011) Reproductive patterns shape introgression dynamics and species succession within the European white oak species complex. Evolution, 65: 156-170.

Goulson D, Lepais O, O'Connor S, Osborne JL, Sanderson RA, Cussans J, Goffe L, Darvill B (2010) Effects of land use at a landscape scale on bumblebee nest density and survival. Journal of Applied Ecology, 47: 1207-1215.

Lepais O, Darvill B, O’Connor S, Osborne J L, Sanderson R A, Cussans J, Goffe L, Goulson D (2010) Estimation of bumblebee queen dispersal distances using sibship reconstruction method. Molecular Ecology 19: 819-831.

Word cloud computed on abstract content of papers I co-authored.