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Structure: Internal structure identifier : 1002210
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Watch out for a second SNP: focus on multi-nucleotide variants in coding regions and rescued stop-gained

Fabien Degalez , Frédéric Jehl , Kévin Muret , Maria Bernard , Frédéric Lecerf , et al.
Frontiers in Genetics, 2021, 12, pp.659287. ⟨10.3389/fgene.2021.659287⟩
Journal articles hal-03280040v1
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FROGS: a powerful tool to analyse the diversity of fungi with special management of internal transcribed spacers

Maria Bernard , Olivier Rué , Mahendra Mariadassou , Géraldine Pascal
Briefings in Bioinformatics, 2021, 22 (6), ⟨10.1093/bib/bbab318⟩
Journal articles hal-03323846v1
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RNA-Seq Data for Reliable SNP Detection and Genotype Calling

Frédéric Jehl , Fabien Degalez , Frédéric Lecerf , Maria Bernard , Laetitia Lagoutte , et al.
Frontiers in Genetics, 2021, 12, pp.655707. ⟨10.3389/fgene.2021.655707⟩
Journal articles hal-03276149v1
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A pile of pipelines: An overview of the bioinformatics software for metabarcoding data analyses

Ali Hakimzadeh , Alejandro Abdala Asbun , Davide Albanese , Maria Bernard , Dominik Buchner , et al.
Molecular Ecology Resources, 2023, ⟨10.1111/1755-0998.13847⟩
Journal articles hal-04183770v1
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Gene Banks as Reservoirs to Detect Recent Selection: The Example of the Asturiana de los Valles Bovine Breed

Simon Boitard , Cyriel Paris , Natalia Sevane , Bertrand Servin , Kenza Bazi-Kabbaj , et al.
Frontiers in Genetics, 2021, 12, ⟨10.3389/fgene.2021.575405⟩
Journal articles hal-03357162v1
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FROGSFUNC: Smart integration of PICRUSt2 software into FROGS pipeline

Vincent Darbot , Moussa Samb , Maria Bernard , Olivier Rué , Géraldine Pascal
JOBIM 2022, Jul 2022, Rennes, France.
Conference poster hal-03806133v1

Identification and characterisation of mitochondrial sequences integrated into the ovine nuclear genome

M. Féménia , M. Charles , A. Boulling , D. Rocha
Animal Genetics, 2021, 52 (4), pp.556-559. ⟨10.1111/age.13096⟩
Journal articles hal-03357099v1
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Detection of selection signatures in Limousin cattle using whole‐genome resequencing

M. Mariadassou , Y. Ramayo‐caldas , M. Charles , M. Féménia , G. Renand , et al.
Animal Genetics, 2020, 51 (5), pp.815-819. ⟨10.1111/age.12982⟩
Journal articles hal-03285327v1

Identification and characterisation of mitochondrial sequences integrated into the ovine nuclear genome

M. Féménia , M. Charles , A. Boulling , D. Rocha
Animal Genetics, 2021, 52 (4), pp.556-559. ⟨10.1111/age.13096⟩
Journal articles hal-04102542v1

GENESEA : développement de la sélection génomique chez le bar et la daurade

François Allal , Ronan Griot , Pierre-Alexandre Gagnaire , Christophe C. Klopp , Aline Bajek , et al.
Journées Techniques du Sysaaf, Dec 2017, Rennes, France
Conference papers hal-03156734v1

Survey of mitochondrial sequences integrated into the bovine nuclear genome

Erwin Tramontin Grau , Mathieu Charles , Maureen Féménia , Emmanuelle Rebours , Anne Vaiman , et al.
Scientific Reports, 2020, 10 (1), pp.2077. ⟨10.1038/s41598-020-59155-4⟩
Journal articles hal-03238137v1

A richer gut microbiota is related to better feed efficiency and diet adaptability in laying hens

Maria Bernard , Alexandre Lecoeur , Jean-Luc Coville , Nicolas Bruneau , Deborah Jardet , et al.
74. Annual meeting of the european federation of animal science (EAAP), EAAP, Aug 2023, Lyon, France. pp.740
Conference papers hal-04199104v1
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Whole genome sequencing reveals signals of adaptive admixture in Creole cattle

Slim Ben-Jemaa , Gabriele Adam , Mekki Boussaha , Philippe Bardou , Christophe C. Klopp , et al.
Scientific Reports, 2023, 13 (1), pp.12155. ⟨10.1038/s41598-023-38774-7⟩
Journal articles hal-04186791v1
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Genetic determinism of spontaneous masculinisation in XX female rainbow trout: new insights using medium throughput genotyping and whole-genome sequencing

Clémence Fraslin , Florence Phocas , Anastasia Bestin , Mathieu Charles , Maria Bernard , et al.
2020
Preprints, Working Papers, ... hal-03026383v1
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A NEW 665K SNP ARRAY USED FOR DETECTING SIGNATURES OF POSITIVE SELECTION IN RAINBOW TROUT (ONCORHYNCHUS MYKISS)

Florence Phocas , Katy Paul , Audrey Dehaullon , Maria Bernard , Gwendal Restoux , et al.
International Symposium on Genetics in Aquaculture, Nov 2022, Puerto Varas, Chile
Conference papers hal-03778981v1
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Whole-genome sequencing reveals insights into the adaptation of French Charolais cattle to Cuban tropical conditions

Lino C. Ramírez-Ayala , Dominique Rocha , Sebas E. Ramos-Onsins , Jordi Leno-Colorado , Mathieu Charles , et al.
Genetics Selection Evolution, 2021, 53 (1), pp.3. ⟨10.1186/s12711-020-00597-9⟩
Journal articles hal-03105253v1

Genetic determinism of spontaneous masculinisation in XX female rainbow trout: new insights using medium throughput genotyping and whole-genome sequencing

Clémence Fraslin , Florence Phocas , Anastasia Bestin , Mathieu Charles , Maria Bernard , et al.
Scientific Reports, 2020, 10, pp.1-13. ⟨10.1038/s41598-020-74757-8⟩
Journal articles hal-02988446v1
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An integrative atlas of chicken long non-coding genes and their annotations across 25 tissues

Frédéric Jehl , Kévin Muret , Maria Bernard , Morgane Boutin , Laetitia Lagoutte , et al.
Scientific Reports, 2020, 10 (1), pp.1-17. ⟨10.1038/s41598-020-77586-x⟩
Journal articles hal-03039897v1
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Le projet « Mille Génomes Gallus » : partager les données de séquences pour mieux les utiliser

Michèle Tixier-Boichard , Frédéric Lecerf , Frédéric Herault , Philippe Bardou , Christophe C. Klopp
INRAE Productions Animales, 2020, 33 (3), pp.189-202. ⟨10.20870/productions-animales.2020.33.3.4564⟩
Journal articles hal-03103324v1
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Insights on the particle-attached riverine archaeal community shifts linked to seasons and to multipollution during a Mediterranean extreme storm event

Mégane Noyer , Maria Bernard , Olivier Verneau , Carmen Palacios
Environmental Science and Pollution Research, 2023, ⟨10.1007/s11356-023-25637-x⟩
Journal articles hal-04028116v1
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The rise and fall of the ancient northern pike master sex-determining gene

Qiaowei Pan , Romain Feron , Elodie Jouanno , Hugo Darras , Amaury Herpin , et al.
eLife, 2021, 10, pp.e62858. ⟨10.7554/eLife.62858⟩
Journal articles hal-03139073v2
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The richer the better: 16S metabarcoding analysis of gut microbiota of laying hens in relation to feed efficiency and adaptation to diet change

Maria Bernard , Alexandre Lecoeur , Jean-Luc Coville , Nicolas Bruneau , Deborah Jardet , et al.
13. International Gut Microbiology Symposium 2023, Jun 2023, Aberdeen, United Kingdom. , 2023, Programme and book of abstracts
Conference poster hal-04127869v1
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Sources of variation of DNA methylation in rainbow trout: combined effects of temperature and genetic background

Delphine Lallias , Maria Bernard , Céline Ciobotaru , Nicolas Dechamp , Laurent Labbé , et al.
Journal articles hal-03003559v1

RNA-SEQ data for reliable SNP detection and genotype calling in livestock species: interest for coding variant characterization and cis-regulation analysis by allele-specific expression

Frédéric Jehl , Fabien Degalez , Maria Bernard , Frédéric Lecerf , Laetitia Lagoutte , et al.
26. World's Poultry Congress (WPC), Aug 2022, Paris, France. pp.405
Conference papers hal-04132375v1