charles perrier

Chargé de recherche en génomique des populations à INRAE
74
Documents

Publications

Publications

Genetic and Environmental Drivers of Multiple Cognitive Abilities in Great Tits Living Along an Altitudinal Gradient

L Gervais , Charles Perrier , T Crouchet , B Penaud , Heeb Philipp et al.
Congress of the European Society for Evolutionary Biology (ESEB 2025), Aug 2025, Barcelona, Spain. , P03.023, pp.476
Poster de conférence hal-05226143 v1

Evolution of the genetic load in invasive insects: insights from a genomic cross-species study

Eric Lombaert , Andréa Beaumé , Aurélie Blin , Martine Da Rocha , Mathieu Gautier et al.
Congress of the European Society for Evolutionary Biology (ESEB 2025), Aug 2025, Barcelona, Spain. , pp.P01.053
Poster de conférence hal-05226015 v1

Reproductive success of dispersers depends on the population of origin in Atlantic salmon

E Egal , Mathieu Buoro , Charles Perrier , Guillaume Evanno
Congress of the European Society for Evolutionary Biology (ESEB 2025), Aug 2025, Barcelona, Spain. , pp.P03.250
Poster de conférence hal-05227870 v1

Natural recolonization of the Seine River by Atlantic salmon of multiple origins

Charles Perrier , Jérôme Belliard , Guillaume Evanno , René Guyomard , Sophie Launey et al.
International Workshop on the Restoration of Fish Populations, Sep 2009, Düsseldorf, Germany. pp.1, 2009
Poster de conférence hal-02592354 v1
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Tit wit: environmental and genetic drivers of cognitive variation along an urbanization gradient

Megan J. Thompson , Laura Gervais , Dhanya Bharath , Samuel P Caro , Alexis S Chaine et al.
Animal Cognition, 2025, 28, pp.56. ⟨10.1007/s10071-025-01962-1⟩
Article dans une revue hal-05163537 v1
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Testing the equivalency of human 'predators' and deep neural networks in the detection of cryptic moths

Mónica Arias , Lis Behrendt , Lyn Dressler , Adelina Raka , Charles Perrier et al.
Journal of Evolutionary Biology, 2025, 38 (2), pp.214-224. ⟨10.1093/jeb/voae146⟩
Article dans une revue hal-04785814 v1
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The American cocoa pod borer, <i>Carmenta foraseminis</i>, an emerging pest of cocoa: A review

Mónica Arias , Philippe Ninnin , Martijn ten Hoopen , Jhoner Alvarado , Oscar Cabezas Huayllas et al.
Agricultural and Forest Entomology, In press, ⟨10.1111/afe.12676⟩
Article dans une revue (article de synthèse) hal-05000650 v1
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Transposable element accumulation drives genome size increase in Hylesia metabus (Lepidoptera: Saturniidae), an urticating moth species from South America

Charles Perrier , Rémi Allio , Fabrice Legeai , Mathieu Gautier , Frédéric Bénéluz et al.
Journal of Heredity, 2025, 116 (3), pp.344-353. ⟨10.1093/jhered/esae069⟩
Article dans une revue hal-04792049 v3
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Cities as parasitic amplifiers? Malaria prevalence and diversity in great tits along an urbanization gradient

Aude Caizergues , Benjamin Robira , Charles Perrier , Mélanie Jeanneau , Arnaud Berthomieu et al.
Peer Community Journal, 2024, 4, pp.e38. ⟨10.24072/pcjournal.405⟩
Article dans une revue hal-04791677 v1

Extra‐pair paternity in two passerine birds breeding in a gradient of urbanisation

Irene Di Lecce , Joanna Sudyka , Charles Perrier , Marta Szulkin
Molecular Ecology, 2024, 33 (17), pp.e17481. ⟨10.1111/mec.17481⟩
Article dans une revue hal-04667601 v1
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Projection of current and future distribution of adaptive genetic units in an alpine ungulate

Amélie Hoste , Thibaut Capblancq , Thomas Broquet , Laure Denoyelle , Charles Perrier et al.
Heredity, 2024, 132, pp.54-66. ⟨10.1038/s41437-023-00661-2⟩
Article dans une revue hal-04365084 v1
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How does urbanization affect natural selection?

Anne Charmantier , Tracy Burkhard , Laura Gervais , Charles Perrier , Albrecht I. Schulte‐hostedde et al.
Functional Ecology, 2024, 38 (12), pp.2522-2536. ⟨10.1111/1365-2435.14667⟩
Article dans une revue (article de synthèse) hal-04775908 v3
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The worldwide invasion history of a pest ambrosia beetle inferred using population genomics

T. Urvois , C. Perrier , Alain Roques , L. Sauné , C. Courtin et al.
Molecular Ecology, 2023, 32 (15), pp.4381-4400. ⟨10.1111/mec.16993⟩
Article dans une revue hal-04132693 v1
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Extra‐pair paternity, breeding density, and synchrony in natural cavities versus nestboxes in two passerine birds

Irene Di Lecce , Charles Perrier , Marta Szulkin , Joanna Sudyka
Ecology and Evolution, 2023, 13, pp.e10163. ⟨10.1002/ece3.10163⟩
Article dans une revue hal-04144537 v1
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A first inference of the phylogeography of the worldwide invader Xylosandrus compactus

Teddy Urvois , Charles Perrier , Alain Roques , Laure Sauné , Claudine Courtin et al.
Journal of Pest Science, 2022, 95 (3), pp.1217-1231. ⟨10.1007/s10340-021-01443-7⟩
Article dans une revue hal-03609676 v1

Linking genetic, morphological, and behavioural divergence between inland island and mainland deer mice

Joshua M. Miller , Dany Garant , Charles Perrier , Tristan Juette , Joël W. Jameson et al.
Heredity, 2022, 128, pp.97-106. ⟨10.1038/s41437-021-00492-z⟩
Article dans une revue hal-03514676 v1
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Population genetics reveals divergent lineages and ongoing hybridization in a declining migratory fish species complex

Quentin Rougemont , Charles Perrier , Anne-Laure Besnard , Isabelle Lebel , Yann Abdallah et al.
Heredity, 2022, 129, pp.137-151. ⟨10.1038/s41437-022-00547-9⟩
Article dans une revue hal-03831324 v1
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Epigenetics and the city: Non‐parallel DNA methylation modifications across pairs of urban‐forest Great tit populations

Aude E. Caizergues , Jeremy Le Luyer , Arnaud Grégoire , Marta Szulkin , Juan-Carlos Senar et al.
Evolutionary Applications, 2022, 15 (1), pp.149-165. ⟨10.1111/eva.13334⟩
Article dans une revue hal-03515127 v1
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Evolving spatial conservation prioritization with intraspecific genetic data

Marco Andrello , Cassidy D’aloia , Alicia Dalongeville , Marco A. Escalante , Jimena Guerrero et al.
Trends in Ecology & Evolution, 2022, 37 (6), pp.553-564. ⟨10.1016/j.tree.2022.03.003⟩
Article dans une revue hal-03823288 v1
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The quest for successful Atlantic salmon restoration: perspectives, priorities, and maxims

Robert J Lennox , Carlos M Alexandre , Pedro R Almeida , Kevin M Bailey , Bjørn T Barlaup et al.
ICES Journal of Marine Science, 2021, 78 (10), pp.3479-3497. ⟨10.1093/icesjms/fsab201⟩
Article dans une revue (article de synthèse) hal-03515150 v1
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Riverscape genetics in brook lamprey: genetic diversity is less influenced by river fragmentation than by gene flow with the anadromous ecotype

Quentin Rougemont , Victoria Dolo , Adrien Oger , Anne-Laure Besnard , Dominique Huteau et al.
Heredity, 2021, 126 (2), pp.235-250. ⟨10.1038/s41437-020-00367-9⟩
Article dans une revue hal-02967504 v1
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Genotyping-by-sequencing reveals the effects of riverscape, climate and interspecific introgression on the genetic diversity and local adaptation of the endangered Mexican golden trout (Oncorhynchus chrysogaster)

Marco Alejandro Escalante , Charles Perrier , Francisco J. García-de León , Arturo Ruiz-Luna , Enrique Ortega-Abboud et al.
Conservation Genetics, 2020, 21 (5), pp.907-926. ⟨10.1007/s10592-020-01297-z⟩
Article dans une revue hal-02921340 v1
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Surface temperatures of non-incubated eggs in great tits (Parus major) are strongly associated with ambient temperature

Marcel M. Lambrechts , Aude Caizergues , Charles Perrier , Anne Charmantier , Samuel Caro
International Journal of Biometeorology, 2020, 64 (10), pp.1767-1775. ⟨10.1007/s00484-020-01958-1⟩
Article dans une revue hal-02899566 v1
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Demographic history and genomics of local adaptation in blue tit populations

Charles Perrier , Quentin Rougemont , Anne Charmantier
Evolutionary Applications, 2020, 13 (6), pp.1145-1165. ⟨10.1111/eva.13035⟩
Article dans une revue hal-02908236 v1
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No evidence of inbreeding depression in fast declining herds of migratory caribou

Marianne Gagnon , Glenn Yannic , Charles Perrier , Steeve Côté
Journal of Evolutionary Biology, 2019, 32 (12), pp.1368-1381. ⟨10.1111/jeb.13533⟩
Article dans une revue hal-02921343 v1
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RAD‐sequencing for estimating genomic relatedness matrix‐based heritability in the wild: A case study in roe deer

Laura Gervais , Charles Perrier , Maria Bernard , Joel Merlet , Josephine Pemberton et al.
Molecular Ecology Resources, 2019, 19 (5), pp.1205-1217. ⟨10.1111/1755-0998.13031⟩
Article dans une revue hal-02349032 v1
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Assortative Mating in Animals and Its Role for Speciation

Tim Janicke , Lucas Marie-Orleach , Thomas G Aubier , Charles Perrier , Edward Morrow
The American Naturalist, 2019, 194 (6), pp.865-875. ⟨10.1086/705825⟩
Article dans une revue hal-02998916 v1
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Comparing genomic signatures of domestication in two Atlantic salmon (Salmo salar L.) populations with different geographical origins

Maria E López , Laura Benestan , Jean-Sébastien Moore , Charles Perrier , John Gilbey et al.
Evolutionary Applications, 2019, 12 (1), pp.137-156. ⟨10.1111/eva.12689⟩
Article dans une revue hal-02921349 v1
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On the importance of time scales when studying adaptive evolution

Charles C. Perrier , Anne Charmantier
Evolution Letters, 2019, 3 (3), pp.240-247. ⟨10.1002/evl3.86⟩
Article dans une revue hal-02367251 v1
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Impact of supplementation on deleterious mutation distribution in an exploited salmonid

Anne-Laure Ferchaud , Martin Laporte , Charles Perrier , Louis Bernatchez
Evolutionary Applications, 2018, 11 (7), pp.1053-1065. ⟨10.1111/eva.12660⟩
Article dans une revue hal-02921353 v1
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Great tits and the city: Distribution of genomic diversity and gene-environment associations along an urbanization gradient

Charles C. Perrier , Ana Lozano del Campo , Marta Szulkin , Virginie Demeyrier , Arnaud Grégoire et al.
Evolutionary Applications, 2018, 11 (5), pp.593-613. ⟨10.1111/eva.12580⟩
Article dans une revue hal-02367249 v1
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Gene flow does not prevent personality and morphological differentiation between two blue tit populations

Gabrielle Dubuc-Messier , Samuel Caro , Charles Perrier , Kees van Oers , Denis Reale et al.
Journal of Evolutionary Biology, 2018, 31 (8), pp.1127-1137. ⟨10.1111/jeb.13291⟩
Article dans une revue hal-02326707 v1

Investigating the extent of parallelism in morphological and genomic divergence among lake trout ecotypes in Lake Superior

Alysse Perreault-Payette , Andrew J. Muir , Frederick Goetz , Charles Perrier , Eric Normandeau et al.
Molecular Ecology, 2017, 26 (6), pp.1477-1497. ⟨10.1111/mec.14018⟩
Article dans une revue hal-02921363 v1

Do genetic drift and accumulation of deleterious mutations preclude adaptation? Empirical investigation using RADseq in a northern lacustrine fish

Charles Perrier , Anne-Laure Ferchaud , Pascal Sirois , Isabel Thibault , Louis Bernatchez
Molecular Ecology, 2017, 26 (22), pp.6317-6335. ⟨10.1111/mec.14361⟩
Article dans une revue hal-02921358 v1

Inferring the demographic history underlying parallel genomic divergence among pairs of parasitic and nonparasitic lamprey ecotypes

Quentin Rougemont , Pierre-Alexandre Gagnaire , Charles Perrier , Clémence Genthon , Anne-Laure Besnard et al.
Molecular Ecology, 2017, 26 (1), pp.142-162. ⟨10.1111/mec.13664⟩
Article dans une revue hal-01606314 v1

Effective number of breeders in relation to census size as management tools for Atlantic salmon conservation in a context of stocked populations

Charles Perrier , Julien April , Guillaume Cote , Louis Bernatchez , Melanie Dionne
Conservation Genetics, 2016, 17 (1), pp.31-44. ⟨10.1007/s10592-015-0758-5⟩
Article dans une revue hal-02921371 v1
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Genomic resources and their influence on the detection of the signal of positive selection in genome scans

S. Manel , Charles Perrier , Marine Pratlong , Laurent Abi-Rached , Julien Paganini et al.
Molecular Ecology, 2016, 25 (1), pp.170-184. ⟨10.1111/mec.13468⟩
Article dans une revue hal-02336047 v1

Making sense of the relationships between Ne, Nb and Nc towards defining conservation thresholds in Atlantic salmon (Salmo salar)

A-L Ferchaud , Charles Perrier , J April , C. Hernandez , M Dionne et al.
Heredity, 2016, 117 (4), pp.268-278. ⟨10.1038/hdy.2016.62⟩
Article dans une revue hal-02921366 v1

Genetic evidence of recent migration among isolated-by-sea populations of the freshwater blenny (Salaria fluviatilis)

Martin Laporte , Charles Perrier , Pierre Magnan , Patrick Berrebi
Conservation Genetics, 2016, 17 (2), pp.389-399. ⟨10.1007/s10592-015-0791-4⟩
Article dans une revue hal-02921370 v1

Low but contrasting neutral genetic differentiation shaped by winter temperature in European great tits

Mélissa Lemoine , Kay Lucek , Charles Perrier , Verena Saladin , Frank Adriaensen et al.
Biological Journal of the Linnean Society, 2016, 118 (3), pp.668-685. ⟨10.1111/bij.12745⟩
Article dans une revue hal-02921368 v1

Investigating genomic and phenotypic parallelism between piscivorous and planktivorous lake trout ( Salvelinus namaycush ) ecotypes by means of RADseq and morphometrics analyses

S. Bernatchez , M. Laporte , Charles Perrier , P. Sirois , L. Bernatchez
Molecular Ecology, 2016, 25 (19), pp.4773-4792. ⟨10.1111/mec.13795⟩
Article dans une revue istex hal-02921365 v1

Genetic and phenotypic changes in an Atlantic salmon population supplemented with non-local individuals: a longitudinal study over 21 years

Sabrina Le Cam , Charles Perrier , Anne-Laure Besnard , Louis Bernatchez , Guillaume Evanno
Proceedings of the Royal Society B: Biological Sciences, 2015, 282 (1802), pp.20142765. ⟨10.1098/rspb.2014.2765⟩
Article dans une revue hal-01218811 v1

RAD genotyping reveals fine-scale genetic structuring and provides powerful population assignment in a widely distributed marine species, the American lobster (Homarus americanus)

Laura Benestan , Thierry Gosselin , Charles Perrier , Bernard Sainte-Marie , Rémy Rochette et al.
Molecular Ecology, 2015, 24 (13), pp.3299-3315. ⟨10.1111/mec.13245⟩
Article dans une revue istex hal-02921372 v1
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Loss of genetic integrity in wild lake trout populations following stocking: insights from an exhaustive study of 72 lakes from Québec, Canada

Eliane Valiquette , Charles Perrier , Isabel Thibault , Louis Bernatchez
Evolutionary Applications, 2014, 7 (6), pp.625-644. ⟨10.1111/eva.12160⟩
Article dans une revue hal-02921381 v1
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Alternative reproductive tactics increase effective population size and decrease inbreeding in wild Atlantic salmon

Charles Perrier , Eric Normandeau , Melanie Dionne , Antoine Richard , Louis Bernatchez
Evolutionary Applications, 2014, 7 (9), pp.1094-1106. ⟨10.1111/eva.12172⟩
Article dans une revue hal-02921373 v1

Stable isotope analyses on archived fish scales reveal the long-term effect of nitrogen loads on carbon cycling in rivers

Jean-Marc Roussel , Charles Perrier , Jaakko Erkinaro , Eero Niemela , Richard A. Cunjak et al.
Global Change Biology, 2014, 20 (2), pp.523-530. ⟨10.1111/gcb.12293⟩
Article dans une revue istex hal-01123117 v1

Influence of Forest Road Culverts and Waterfalls on the Fine-Scale Distribution of Brook Trout Genetic Diversity in a Boreal Watershed

Jean-Baptiste Torterotot , Charles Perrier , Normand Bergeron , Louis Bernatchez
Transactions of the American Fisheries Society, 2014, 143 (6), pp.1577-1591. ⟨10.1080/00028487.2014.952449⟩
Article dans une revue hal-02921379 v1

Origins and genetic diversity among Atlantic salmon recolonizing upstream areas of a large South European river following restoration of connectivity and stocking

Charles Perrier , Jérôme Le Gentil , Virginie Ravigné , Philippe Gaudin , Jean-Claude Salvado
Conservation Genetics, 2014, 15 (5), pp.1095-1109. ⟨10.1007/s10592-014-0602-3⟩
Article dans une revue hal-01210223 v1

An improved PCR-based method for faster sex determination in brown trout [i](Salmo trutta)[/i] and Atlantic salmon [i](Salmo salar)[/i]

Erwan Quéméré , Charles Perrier , Anne-Laure Besnard , Guillaume Evanno , Jean-Luc Baglinière et al.
Conservation Genetics Resources, 2014, 6, pp.825-827. ⟨10.1007/s12686-014-0259-8⟩
Article dans une revue hal-01205112 v1
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Understanding admixture patterns in supplemented populations: a case study combining molecular analyses and temporally explicit simulations in Atlantic salmon

Charles C. Perrier , Jean-Luc Baglinière , Guillaume Evanno
Evolutionary Applications, 2013, 6 (2), pp.218 - 230. ⟨10.1111/j.1752-4571.2012.00280.x⟩
Article dans une revue hal-01001585 v1

Parallel and nonparallel genome-wide divergence among replicate population pairs of freshwater and anadromous Atlantic salmon

Charles Perrier , Vincent Bourret , Matthew Kent , Louis Bernatchez
Molecular Ecology, 2013, 22 (22), pp.5577-5593. ⟨10.1111/mec.12500⟩
Article dans une revue istex hal-02921384 v1
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Reduced fitness of Atlantic salmon released in the wild after one generation of captive breeding

Emmanuel Milot , Charles Perrier , Lucie Papillon , Julian Dodson , Louis Bernatchez
Evolutionary Applications, 2013, 6 (3), pp.472-485. ⟨10.1111/eva.12028⟩
Article dans une revue hal-02921390 v1
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Changes in the genetic structure of Atlantic salmon populations over four decades reveal substantial impacts of stocking and potential resiliency

Charles C. Perrier , René R. Guyomard , Jean-Luc Baglinière , Natacha N. Nikolic , Guillaume Evanno
Ecology and Evolution, 2013, 3 (7), pp.2334-2349. ⟨10.1002/ece3.629⟩
Article dans une revue hal-01001102 v1

Determinants of hierarchical genetic structure in Atlantic salmonpopulations: environmental factors vs. anthropogenic influences

Charles C. Perrier , René R. Guyomard , Jean-Luc Baglinière , Guillaume Evanno
Molecular Ecology, 2011, 20 (20), pp.4231 - 4245. ⟨10.1111/j.1365-294X.2011.05266.x⟩
Article dans une revue istex hal-01004630 v1

Coupling genetic and otolith trace element analyses to identify river-born fish with hatchery pedigrees in stocked Atlantic salmon (Salmo salar) populations

Charles Perrier , Françoise Daverat , Guillaume Evanno , Christophe Pécheyran , Jean-Luc Baglinière et al.
Canadian Journal of Fisheries and Aquatic Sciences, 2011, 68 (6), pp.977-987. ⟨10.1139/f2011-040⟩
Article dans une revue hal-01453854 v1

A species-specific microsatellite marker to discriminate European Atlantic salmon, brown trout, and their hybrids

Charles Perrier , Frederic Grandjean , Jérôme Le Gentil , Corinne Cherbonnel , Guillaume Evanno
Conservation Genetics Resources, 2011, 3 (1), pp.131-133. ⟨10.1007/s12686-010-9307-1⟩
Article dans une revue hal-01453825 v1
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Natural recolonization of the Seine River by Atlantic salmon (Salmo salar) of multiple origins

Charles Perrier , Guillaume Evanno , Jérôme Belliard , René Guyomard , Jean-Luc Baglinière
Canadian Journal of Fisheries and Aquatic Sciences, 2010, 67 (1), p. 1 - p. 4. ⟨10.1139/F09-190⟩
Article dans une revue hal-00584140 v1

Climate change may have affected growth and life history of Atlantic salmon juveniles over the last 30 years

Etienne Rivot , Charles Perrier , C. Jouanin , Jean-Marc Roussel , P. Riera et al.
American Fisheries Society Symposium, 2009, 69, pp.855-857
Article dans une revue hal-01482807 v1

Genetic causes and consequences of sympatric allochronic differentiation in a defoliating insect

Tanguy Muller , Carole Kerdelhué , Eric Lombaert , Raphaël Leblois , Laure Sauné et al.
Conservation genomics Paris 2024 (conservgenomics), Jun 2024, Paris, France
Communication dans un congrès hal-04724801 v1

Contrasting invasion history in two ambrosia beetles of the Xylosandrus genus

Teddy Urvois , Charles Perrier , Alain Roques , Laure Sauné , Claudine Courtin et al.
26. International Congress of Entomology, Jul 2022, Helsinki, Finland
Communication dans un congrès hal-04171659 v1

Genetic structure of European invasive populations of two Xylosandrus species

Teddy Urvois , Charles Perrier , Alain Roques , Laure Saune , Claudine Courtin et al.
XXVI National Italian Congress of Entomology (CNIE), Jun 2021, Online, France
Communication dans un congrès hal-03593160 v1

Climate change may have affected growth and life history in atlantic salmon juveniles over the past 30 years

Etienne Rivot , Charles C. Perrier , Celine Jouanin , Jean-Marc Roussel , Pascal Riera et al.
International Symposium on Challenges for Diadromous Fishes in a Dynamic Global Environment Location, American Fisheries Society (AFS). USA., Jul 2007, Halifax, Canada
Communication dans un congrès hal-02758374 v1

Le changement climatique et les pressions anthropiques affectent-ils la croissance et l'histoire de vie des juvéniles de saumons atlantiques?

Etienne Rivot , Charles Perrier , Jean-Marc Roussel , Jean-Pierre Porcher , Jean-Luc Baglinière
8. Forum halieumétrique. Changements réversibles et irréversibles dans les ressources et leurs usages, Jun 2007, La Rochelle, France. pp.Inconnue
Communication dans un congrès hal-01453688 v1

Les scolytes du genre Xylosandrus à la conquête de l'Europe

Teddy Urvois , Jean-Pierre Rossi , Charles Perrier , Alain Roques , Marie-Anne Auger-Rozenberg et al.
Christian Lannou; Jean-Yves Rasplus; Samuel Soubeyrand; Mathieu Gautier; Jean-Pierre Rossi. Crises sanitaires en agriculture. Les espèces invasives sous surveillance, Editions Quae, pp.79-94, 2023, Savoir faire, 9782759234820
Chapitre d'ouvrage hal-04171739 v1

Adaptation genomics in urban environments

Charles Perrier , Aude Caizergues , Anne Charmantier
Marta Szulkin; Jason Munshi-South; Anne Charmantier. Urban evolutionary biology, Oxford University Press, pp.74-90, 2020, 978-0-19-883684-1. ⟨10.1093/oso/9780198836841.003.0005⟩
Chapitre d'ouvrage hal-02921397 v1