sonia eynard

51
Documents
Affiliation actuelle
  • Génétique Physiologie et Systèmes d'Elevage (GenPhySE)
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Publications

Standard methods and good practices in Apis honey bee omics research

Maeva Techer , Priyadarshini Chakrabarti , Lílian Caesar , Sonia E Eynard , M. Catherine Farrell et al.
Journal of Apicultural Research, 2025, 64 (2), pp.307-402. ⟨10.1080/00218839.2025.2455852⟩
Article dans une revue hal-05038328 v1
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The black honey bee genome: insights on specific structural elements and a first step towards pangenomes

Sonia E. Eynard , Christophe Klopp , Kamila Canale-Tabet , William Marande , Céline Vandecasteele et al.
Genetics Selection Evolution, 2024, 56 (1), pp.51. ⟨10.1186/s12711-024-00917-3⟩
Article dans une revue hal-04629878 v1
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Sequence‐Based Multi Ancestry Association Study Reveals the Polygenic Architecture of Varroa destructor Resistance in the Honeybee Apis mellifera

Sonia Eynard , Fanny Mondet , Benjamin Basso , Olivier Bouchez , Yves Le Conte et al.
Molecular Ecology, 2024, ⟨10.1111/mec.17637⟩
Article dans une revue hal-04866824 v1
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Inferring Long-Term and Short-Term Determinants of Genetic Diversity in Honey Bees: Beekeeping Impact and Conservation Strategies

Thibault Leroy , Pierre Faux , Benjamin Basso , Sonia Eynard , David Wragg et al.
Molecular Biology and Evolution, 2024, 41 (12), pp.msae249. ⟨10.1093/molbev/msae249⟩
Article dans une revue hal-04847121 v1
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Identification of runs of homozygosity in Western honey bees ( Apis mellifera ) using whole‐genome sequencing data

Annik Imogen Gmel , Matthieu Guichard , Benjamin Dainat , Geoffrey Rhys Williams , Sonia Eynard et al.
Ecology and Evolution, 2023, 13 (1), pp.e9723. ⟨10.1002/ece3.9723⟩
Article dans une revue hal-03993788 v1
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The black honey bee genome: insights on specific structural elements and a first step towards pan-genomes

Sonia Eynard , Christophe Klopp , Kamila Canale-Tabet , William Marande , Céline Vandecasteele et al.
Genetics Selection Evolution, 2023, 56 (1), pp.51. ⟨10.1101/2023.12.06.570386⟩
Article dans une revue hal-04473386 v2
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Two quantitative trait loci are associated with recapping of Varroa destructor ‐infested brood cells in Apis mellifera mellifera

M. Guichard , B. Dainat , S. Eynard , Alain Vignal , Bertrand Servin et al.
Animal Genetics, 2022, 53 (1), pp.156-160. ⟨10.1111/age.13150⟩
Article dans une revue hal-03540810 v1
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Complex population structure and haplotype patterns in the Western European honey bee from sequencing a large panel of haploid drones

David Wragg , Sonia Eynard , Benjamin B. Basso , Kamila Canale-Tabet , Emmanuelle Labarthe et al.
Molecular Ecology Resources, 2022, 22 (8), pp.3068-3086. ⟨10.1111/1755-0998.13665⟩
Article dans une revue hal-03807491 v1
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Reconstructing queen genotypes by pool sequencing colonies in eusocial insects: Statistical Methods and their application to honeybee

Sonia E Eynard , Alain Vignal , Benjamin Basso , Kamila Canale‐tabet , Yves Le Conte et al.
Molecular Ecology Resources, 2022, 22 (8), pp.3035-3048. ⟨10.1111/1755-0998.13685⟩
Article dans une revue hal-03855231 v1
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Identification of quantitative trait loci associated with calmness and gentleness in honey bees using whole‐genome sequences

Matthieu Guichard , Benjamin Dainat , Sonia Eynard , Alain Vignal , Bertrand Servin et al.
Animal Genetics, 2021, pp.13070. ⟨10.1111/age.13070⟩
Article dans une revue hal-03252574 v1
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The impact of using old germplasm on genetic merit and diversity-A cattle breed case study

Sonia Eynard , Jack J. Windig , Ina Hulsegge , Sipke-Joost Hiemstra , Mario P. L. Calus
Journal of Animal Breeding and Genetics, 2018, 135 (4), pp.311-322. ⟨10.1111/jbg.12333⟩
Article dans une revue hal-02621130 v1
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Which individuals to choose to update the reference population? Minimizing the loss of genetic diversity in animal genomic selection programs

Sonia Eynard , Pascal Croiseau , Denis Laloë , Sébastien Fritz , Mario P. L. Calus et al.
G3, 2018, 8 (1), pp.113-121. ⟨10.1534/g3.117.1117⟩
Article dans une revue hal-01684895 v1
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Whole-genome sequence data uncover loss of genetic diversity due to selection

Sonia E. Eynard , Jack J. Windig , Sipke J. Hiemstra , Mario P. L. Calus
Genetics Selection Evolution, 2016, 48 (1), pp.33. ⟨10.1186/s12711-016-0210-4⟩
Article dans une revue hal-01341367 v1
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Whole-genome sequence data uncover loss of genetic diversity due to selection

Sonia Eynard , Jack Windig , Sipke Hiemstra , Mario Calus
Genetics Selection Evolution, 2016, 48 (1), pp.33. ⟨10.1186/s12711-016-0210-4⟩
Article dans une revue hal-04473305 v1
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The effect of rare alleles on estimated genomic relationships from whole genome sequence data

Sonia Eynard , Jack Windig , Grégoire Leroy , Rianne van Binsbergen , Mario Calus
BMC Genetics, 2015, 16, pp.1-27. ⟨10.1186/s12863-015-0185-0⟩
Article dans une revue hal-01194072 v1

Transgenerational response to an endocrine disruptor ingestion : phenotypic, genetic and epigenetic analyses in quail.

Stacy Rousse , Sophie Leroux , David Gourichon , Ludovic Calandreau , Tatiana Zerjal et al.
EpiPHASE 2024, Oct 2024, Saint Pée sur Nivelle, France
Communication dans un congrès hal-04770243 v1

Genotyping By Pool Sequencing Eusocial Colonies and Its Applications to Honeybee

Sonia E Eynard , Alain Vignal , Benjamin B. Basso , Yves Le Conte , Kamila Tabet et al.
XXVIIII Plant and Animal Genome, Jan 2022, San Diego (CA), France
Communication dans un congrès hal-04473343 v1

In search of the honey bee centromeres: regions with tandem repeats high at content and low recombination rates

Alain Vignal , Sonia E Eynard , Christophe Klopp , Bertrand Servin , Kamila Canale-Tabet et al.
9th European Congress of Apidology, Sep 2022, Belgrade, Serbia
Communication dans un congrès hal-03855207 v1

Statistics for an accurate genome wide association study on Varroa resistance trait in a French honeybee

Sonia E Eynard , A. Vignal , Yves Agez , Benjamin B. Basso , Olivier Bouchez et al.
World Congress on Genetics Applied to Livestock Production, Jul 2022, Rotterdam, Netherlands
Communication dans un congrès hal-03859236 v1

Statistical models for the genetic characterisation of honeybee colonies from whole genome pool sequencing data.

Sonia E Eynard , Alain Vignal , Christina Sann , Fanny Mondet , Benjamin B. Basso et al.
PopGroup 54, Jan 2021, Online, France
Communication dans un congrès hal-04473366 v1
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Statistical Imputation of Queen Genotype from Pool Sequencing of Workers

Bertrand Servin , Sonia Eynard , Fanny Mondet , Lucie Genestout , Olivier Bouchez et al.
PLant and Animal Genome, Jan 2020, San Diego, United States
Communication dans un congrès hal-02938108 v1
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European Honeybee Subspecies Genomes at the Individual and Population Levels

Alain Vignal , Benjamin Basso , Kaspar Bienefeld , Kamila Canale-Tabet , Cecilia Costa et al.
Plant and Animal Genome, Sep 2020, San-Diego, United States
Communication dans un congrès hal-02938071 v1

Characterisation of the genotype of honey bee colonies from pool sequences

Sonia Eynard , Christina Sann , Fanny Mondet , Benjamin Basso , Kamila Canale-Tabet et al.
46. APIMONDIA - International Apicultural Congress, Sep 2019, Montreal, Canada
Communication dans un congrès hal-02789560 v1

BeeStrong : towards a genomic tool for the selection of varroa resistant honey bees

Christina Sann , Yannick Poquet , Benjamin B. Basso , Sonia Eynard , Bertrand Servin et al.
46. APIMONDIA - International Apicultural Congress, Sep 2019, Montreal, Canada
Communication dans un congrès hal-02788639 v1

De novo genome assembly of a western European Apis mellifera mellifera black bee

Alain Vignal , Sonia E Eynard , Christophe Klopp , Kamila Canale Tabet , William Marande et al.
Apimondia, Sep 2019, MOntréal, Canada
Communication dans un congrès hal-04796454 v1

De novo genome assembly of a western European Apis mellifera mellifera black bee

Alain Vignal , Sonia Eynard , Christophe Klopp , Kamila Canale-Tabet , William Marande et al.
8. Congress of Apidology (EurBee 8), Sep 2018, Ghent, Belgium
Communication dans un congrès hal-02785743 v1

BeeStrong: towards a genomic tool for the selection of Varroa resistant honey bees

Christina Sann , Yannick Poquet , Benjamin Basso , Fanny Mondet , Sonia Eynard et al.
8. Congress of Apidology (EurBee 8), Sep 2018, Ghent, Belgium
Communication dans un congrès hal-02786490 v1

Explaining the resistance to Varroa destructor in the French honey bee population with VSH, SMR and colony dynamic data

Sonia Eynard , Benjamin Basso , Anne-Laure Guirao , Fanny Mondet , Alain Vignal et al.
8. Congress of Apidology (EurBee 8), Sep 2018, Ghent, Belgium
Communication dans un congrès hal-02785764 v1

The value of conserved samples in gene banks for animal breeding in the MRIJ cattle breed

Sonia Eynard , Mario P.L. Calus , Ina Hulsegge , Sipke-Joost Hiemstra , Jack J. Windig
11. World Congress on Genetics Applied to Livestock Production (WCGALP), Feb 2018, Auckland, New Zealand
Communication dans un congrès hal-02734905 v1

Genetic diversity in the barn. Updates in livestock genetic diversity conservation and its potential use for wildlife conservation

Sonia Eynard , Mario P.L. Calus , Gwendal Restoux
Seminar Conservation of adaptive potential and functional diversity, Sep 2017, Durham, Netherlands
Communication dans un congrès hal-02787526 v1

The impact of whole genome sequence data to prioritise animals for genetic diversity conservation

Sonia Eynard , Jack J. Windig , Sipke-Joost Hiemstra , Mario P. L. Calus
66. Annual Meeting of the European Federation of Animal Science (EAAP), Aug 2015, Varsovie, Poland. 577 p
Communication dans un congrès hal-02740730 v1

The Use of Whole Genome Sequence Data to Estimate Genetic Relationships Including Rare Alleles Information

Sonia Eynard , Jack J. Windig , Grégoire G. Leroy , Etienne Verrier , Sipke-Joost Hiemstra et al.
10. World Congress on Genetics Applied to Livestock Production (WCGALP), Aug 2014, Vancouver, Canada
Communication dans un congrès hal-02740731 v1

The use of whole genome sequence data to estimate genetic relationships including rare alleles information

Grégoire Leroy , Sonia Eynard , Jj Windig , Etienne Verrier , S.J. Hiemstra et al.
10th World Congress of Genetics Applied to Livestock Production , Aug 2014, Vancouver, Canada. pp.47
Communication dans un congrès hal-01559516 v1
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Transgenerational epigenetics in quail: targeting DNA methylation patterns to address the interplay between genetic and epigenetic mechanisms

Stacy Rousse , Chloé Cerutti , Sophie Leroux , Paul Terzian , Joanna Lledo et al.
Ecology and Evolution, Oct 2024, Lyon, France
Poster de conférence hal-04770637 v1
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Conserved highly heterogeneous genomic landscapes of diversity in honey bees

Thibault Leroy , Pierre Faux , Sonia E Eynard , David Wragg , Alain Vignal
Plant and Animal Genome (PAG 32), Jan 2024, San Diego (CA), France
Poster de conférence hal-04848302 v1

Whole genome sequencing and epigenotyping for multiple generations of selection using Oxford Nanopore Technology

Sonia E Eynard , Cécile Donnadieu , Loïc Flatres-Grall , Carole Iampietro , Sandrine Lagarrigue et al.
International congress in Ecology and Evolution, Oct 2024, Lyon, France
Poster de conférence hal-04796434 v1
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Whole genome sequencing and epigenotyping for multiple generations of selection using Oxford Nanopore Technology

Sonia E Eynard , Cécile Donnadieu , Loïc Flatres-Grall , Carole Iampietro , Sandrine Lagarrigue et al.
Environmental and Agronomical Genomics Symposium, Feb 2024, Toulouse, France. , pp.118, Book of abstracts
Poster de conférence hal-04473354 v1

Population structure of French honey bees from sequencing a large panel of haploid drones

Alain Vignal , Sonia E Eynard , Bertrand Servin , Kamila Canale Tabet , Benjamin B. Basso et al.
Environmental and Agronomical Genomics Symposium, Jan 2024, Toulouse, France
Poster de conférence hal-04796462 v1
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Transgenerational response to endocrine disruptor : phenotypic, genotypic and epigenotypic analyses in quail

Stacy Rousse , Sophie Leroux , David Gourichon , Ludovic Calandreau , Chloé Cerutti et al.
Environmental and Agronomical Genomics Symposium, Feb 2024, Toulouse, France. , pp.128, 2024, Book of abstracts
Poster de conférence hal-04474289 v1

L’évolution de l’épigénétique au cours de plusieurs générations de sélection

Sonia E Eynard , Cécile Donnadieu , Loïc Flatres-Grall , Carole Iampietro , Sandrine Lagarrigue et al.
EpiPhase, Oct 2023, Jouy en Josas, France
Poster de conférence hal-04796446 v1
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The evolution of epigenetics across multiple generations

Sonia E Eynard , Cécile Donnadieu , Loïc Flatres-Grall , Carole Iampietro , Sandrine Lagarrigue et al.
Epigenetic inheritance symposium, Aug 2023, Zurich, Switzerland. 2023
Poster de conférence hal-04195749 v1
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From workers to queen -Statistical imputation of individual genotype from pool sequencing

Sonia E Eynard , Christina Sann , Fanny Mondet , Benjamin Basso , Kamila Canake-Tabet et al.
Approche Interdisciplinaire de l'Evolution Moléculaire, Nov 2019, Toulouse, France
Poster de conférence hal-04493790 v1

Updating reference population in Genomic Selection for genetic diversity conservation What can we learn from real data and simulations?

Sonia Eynard , Pascal Croiseau , Denis Laloë , Mario P.L. Calus , Sebastien Fritz et al.
Gordon Research Conference in Quantitative Genetics and Genomics, Feb 2017, Galveston Texas, United States. 2017
Poster de conférence hal-02787529 v1

Which individual to phenotype? Optimal design of reference population for genomic selection while maintaining genetic diversity

Sonia Eynard , Denis Laloë , Pascal Croiseau , Mario P. L. Calus , Sebastien Fritz et al.
ICQG 5, Jun 2016, Madison, Wisconsin, United States. 2016
Poster de conférence hal-02796864 v1
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Empowering bioinformatics communities with Nextflow and nf-core

Björn E Langer , Andreia Amaral , Marie-Odile Baudement , Franziska Bonath , Mathieu Charles et al.
2024
Pré-publication, Document de travail hal-04770333 v1
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Sequence-based genome-wide association studies reveal the polygenic architecture of Varroa destructor resistance in Western honey bees Apis mellifera

Sonia Eynard , Fanny Mondet , Benjamin Basso , Olivier Bouchez , Tabatha Bulach et al.
2024
Pré-publication, Document de travail hal-04493727 v1
Image document

From group to individual - Genotyping by pool sequencing eusocial colonies

Sonia Eynard , Alain Vignal , Benjamin B. Basso , Yves Le Conte , Axel Decourtye et al.
2021
Pré-publication, Document de travail hal-03482633 v1

Runs of homozygosity derived from pool-seq data reveal fine-scale population structures in Western honey bees (Apis mellifera)

Annik Gmel , Matthieu Guichard , Benjamin Dainat , Geoffrey Williams , Sonia Eynard et al.
2021
Pré-publication, Document de travail hal-03482627 v1
Image document

Complex population structure and haplotype patterns in Western Europe honey bee from sequencing a large panel of haploid drones

David Wragg , Sonia E Eynard , Benjamin B. Basso , Kamila Canale-Tabet , Emmanuelle Labarthe et al.
2021
Pré-publication, Document de travail (preprint/prepublication) hal-03482707 v1
Image document

Descriptive Analysis of the Varroa Non-reproduction Trait in Honey Bee Colonies and Association with Other Traits Related to Varroa Resistance

Sonia E Eynard , Christina Sann , Benjamin Basso , Anne-Laure Guirao , Yves Le Conte et al.
2024
Pré-publication, Document de travail (preprint/prepublication) hal-04746089 v1
Image document

Using genomic information to conserve genetic diversity in livestock

Sonia Eynard
Life Sciences [q-bio]. Institut agronomique, vétérinaire et forestier de France; Wageningen Universiteit en Researchcentrum (Wageningen, Nederland), 2018. English. ⟨NNT : 2018IAVF0004⟩
Thèse tel-02787583 v2