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24, chemin de Borde Rouge -Auzeville - CS52627 31326 Castanet Tolosan cedex - France

Last update: May 2021

Menu Logo Principal AgroParisTech Université Paris-Saclay SAPS - Sciences Animales Paris-Saclay


GABI : Génétique Animale et Biologie IntégrativeUnité Mixte de Recherche INRA - AgroParisTech


Recent publications

Adel-Patient K, Campeotto F, Grauso M, Guillon B, Moroldo M, Venot E, Dietrich C, Machavoine F, Castelli F, Fenaille F, Molina TJ, Barbet P, Delacourt C, Leite-de-Moraes M, Lezmi G. 2023. Assessment of local and systemic signature of eosinophilic esophagitis (EoE) in children through multi-omics approaches. Frontiers in immunology. 

Bi H, Tranell J, Harper DC, Lin W, Li J, Hellstrom AR, Larsson M, Rubin C-J, Wang C, Sayyab S, Kerje S, Bed'hom B, Gourichon D, Ito S, Wakamatsu K, Tixier-Boichard M, Marks MS, Globisch D, Andersson L. 2023. A frame-shift mutation in COMTD1 is associated with impaired pheomelanin pigmentation in chicken. PLoS genetics. 

Dufour A, Kurilo C, Stöckl JB, Laloë D, Bailly Y, Manceau P, Martins F, Turhan AG, Ferchaud S, Pain B, Fröhlich T, Foissac S, Artus J, Acloque H. 2023. Cell specification and functional interactions in the pig blastocyst inferred from single cell transcriptomics. BioRXIV. 

Jacques A, Leroy G, Rognon X, Verrier E, Tixier‑Boichard M, Restoux G. 2023. Reintroducing genetic diversity in populations from cryopreserved material: the case of Abondance, a French local dairy cattle breed. Genet Sel Evol. 

Noel A, Dumas C, Rottier E, Beslay D, Costagliola G, Ginies C, Nicole F, Rau A, Le Conte Y, Mondet F. 2023. Detailed chemical analysis of honey bee (Apis mellifera) worker brood volatile profile from egg to emergence. PloS one 

Noyer M, Bernard M, Verneau O, Palacios C. 203. Insights on the particle‑attached riverine archaeal community shifts linked to seasons and to multipollution during a Mediterranean extreme storm event. Envir Sci Poll Res 

Smith J, Alfieri J, M, Anthony N, Arensburger P, Athrey G, Balacco J,.......Tixier-Boichard M, ... Yang C, Yin Z, -T, Young M, Zhang G, Zhao B, Zhou H. 2023. Fourth Report on Chicken Genes and Chromosomes 2022. Cytogenet Genome Res. 


Auclair-Ronzaud J, Jaffrézic F, Wimel L, Dubois C, Laloë D, Chavatte-Palmer P. 2022. Estimation of milk production in suckling mares and factors influencing their milk yield. Animal. 

Bernard M, Dehaullon A, Gao G, Paul K, Lagarde H, Charles M, Prchal M, Danon J, Jaffrelo L, Poncet C, Patrice P, Haffray P, Quillet E, Dupont-Nivet M, Palti Y, Lallias D, Phocas F. 2022. Development of a High-Density 665 K SNP Array for Rainbow Trout Genome-Wide Genotyping. Front Genetics 

Cazals A, Estelle J, Bruneau N, Coville JL, Menanteau P, Rossignol MN, Jardet D, Bevilacqua C, Rau A, Bed'Hom B, Velge P, Calenge F. 2022. Differences in caecal microbiota composition and Salmonella carriage between experimentally infected inbred lines of chickens. Gen Sel Evol.

Cerutti C, Leroux S, Gourichon D, Labrune Y, David I, Zerjal T, Coustham V, Devailly G, Pitel F. 2022. Effects of in-ovo injection of endocrine disruptors and methyltransferase inhibitor on quail growth and egg-laying performances. Animal. 

Costes V, Chaulot-Talmon A, Sellem E, Perrier JP, Aubert-Frambourg A, Jouneau L, Pontlevoy C, Hozé C, Fritz S, Boussaha M, Le Danvic C, Sanchez MP, Boichard D, Schibler L, Jammes H, Jaffrézic F, Kiefer H. 2022. Predicting male fertility from the sperm methylome: application to 120 bulls with hundreds of artificial insemination records. Clinical Epigenetics.

Denis B, Verrier E. 2022. Cinquante ans d’activité de la Société d’Ethnozootechnie : bilan et leçons pour demain. Ethnozootechnie 

Fiddaman SR, Klopp C, Charles M, Bardou P, Lebrasseur O, Derks M, Schauer J, Reimer C, Geibel J, Gheyas A, Smith A, Schnabel R, Martin Cerezo ML, Nishibori M, Godinez CJP, Layos JKN, Alfieri JM, Blackmon H, Athrey GN, Larson G, Ng’ang’a I, Muir W, Lange M, Wright D, Cheng H, Simianer H, Weigend S, Warren W, Crooijmans R, Hanotte O, Smith J, Tixier-Boichard M, Frantz LAF. 2023 Chicken Genomic Diversity Consortium: Large-Scale Genomics to Unravel the Origins and Adaptations of Chickens. Cytogenetic and Genome Research. 

Hue-Beauvais C, Bédin K, Robert R, Gardan-Salmon D, Maupin M, Brun N, Aujean E, Jaffrezic F, Simon S, Charlier M, Le Provost F. 2022. Impact of pre-breeding feeding practices on rabbit mammary gland development at mid-pregnancy Peer Community in Animal Science (bioRxiv)

Gascuel-Odoux C, Lescourret F, Dedieu B, Detang-Dessendre C, Faverdin P, Hazard L, Litrico-Chiarelli I, Petit S, Roques L, Reboud X, Tixier-Boichard M, de Vries H, Caquet T. 2022. A research agenda for scaling up agroecology in European countries. AGRONOMY FOR SUSTAINABLE DEVELOPMENT.

Gastinel PL, Danchin-Burge C, Denis B, Verrier E L’œuvre et l’héritage de Laurent Avon. 2022. Ethnozootechnie 

Mazurier M, Drouaud J, Bahrman N, Rau A, Lejeune-Henaut I, Delbreil B, Legrand S. 2022. Integrated sRNA-seq and RNA-seq Analyses Reveal a microRNA Regulation Network Involved in Cold Response in Pisum sativum L. Genes 

Mollandin F., Gilbert H., Croiseau P., Rau A. 2022. Accounting for overlapping annotations in genomic prediction models of complex traits. BMC Bioinformatics, 23, 365. 

Quéméré P, Denis B, Lauvie A, Verrier E. 2022. Les races en péril : un thème identitaire pour une association lanceuse d’alerte. Ethnozootechnie 

Rau A, Manansala R, Flister MJ, Rui H, Jaffrezic F, Laloe D, Auer PL. 2022. Individualized multi-omic pathway deviation scores using multiple factor analysis. BIOSTATISTICS. 

Rau A, Passet B, Castille J, Daniel-Carlier N, Asset A, Lecardonnel J, Moroldo M, Jaffrézic F, Laloë D, Moazami-Goudarzi K, Vilotte JL. 2022. Potential genetic robustness of Prnp and Sprn double knockout mouse embryos towards ShRNA-lentiviral inoculation. Vet Res. 

Restoux G, Rognon X, Vieaud A, Guemene D, Petitjean F, Rouger R, Brard‑Fudulea S, Lubac‑Paye S, Chiron G, Tixier‑Boichard M. 2022. Managing genetic diversity in breeding programs of small populations: the case of French local chicken breeds. Gen Sel Evol 

Senczuk G, Criscione A, Mastrangelo S, Biscarini F, Marletta D, Pilla F, Laloë D, Ciampolini R. 2022. How Geography and Climate Shaped the Genomic Diversity of Italian Local Cattle and Sheep Breeds. Animals.

Verma M, Laloe D, Dige MS, De S, Rout PK. 2022. Landscape and bioclimatic diversity of milk protein variability in tropical goats. Small Ruminant Research 

Verrier E, Ducos A. 2022. Aspects génétiques de l’évolution de l’élevage : une histoire de temps, de moyens et d’organisation sociale. Bulletin de l’Académie Vétérinaire de France.


Bernard M, Rué O, Mariadassou M, Pascal G. 2021. FROGS: a powerful tool to analyse the diversity of fungi with special management of internal transcribed spacers. Brief Bioinfo. 1, 6

Boitard S, Paris C, Sevane N, Servin B, Bazi-Kabbaj K, Dunner S. 2021. Gene Banks as Reservoirs to Detect Recent Selection: The Example of the Asturiana de los Valles Bovine Breed. Front Genet. 12, 575405

Borey M, Blanc F, Lemonnier G, Leplat JJ, Jardet D, Rossignol MN, Ravon L, Billon Y, Bernard M, Estelle J, Rogel-Gaillard C. 2021. Links between fecal microbiota and the response to vaccination against influenza A virus in pigs. NPJ Vaccines, 6

Charvolin-Lemaire E, Laloë D. 2021. Evolution du concept de race et sa pertinence au début du XXIe siècle. Ethnozootechnie. 109, 47-52

Crisci E, Moroldo M, Manh TPV, Mohammad A, Jourdren L, Urien C, Bouguyon E, Bordet E,  Bevilacqua C, Bourge M, Pezant J, Pleau A,  Boulesteix O, SchwartzI I, Bertho N, Giuffra E. 2020Distinctive cellular and metabolic reprogramming in porcine lung mononuclear phagocytes infected with type 1 PRRSV strains. Front Immunol. 11, 588411

David GM, López-García P, Moreira D, Alric B, Deschamps P, Bertolino P, Restoux G, Rochelle-Newall E, Thébault E, Simon M, Jardillier L. 2021.  Small freshwater ecosystems with dissimilar microbial communities exhibit similar temporal patterns. Mol Ecol. 11

Degalez F, Jehl F, Muret K, Bernard M, Lecerf F, Lagoutte L, Désert C, Pitel F, Klopp C, Lagarrigue S. 2021. Watch Out for a Second SNP: Focus on Multi-Nucleotide Variants in Coding Regions and Rescued Stop-Gained. Front Genet.

De Oliveira Silva R, Gardyn OC, Hiemstra SJ,  Marques JGO, Tixier-Boichard M, Moran, D. 2021. Ex situ and in situ data for endangered livestock breeds in Spain. Data in Brief, 35

Destoumieux-Garzón D, Bonnet P, Teplitsky C, Criscuolo F, Henry PY, Mazurais D, Prunet P, Salvat G, Usseglio-Polatera P, Verrier E, Friggens N. 2021. OneARK: Strengthening the links between animal production science and animal ecology. Animal, 15:100053

DeVogel N, Auer PL,  Manansala R, Rau A, Wang T. 2021A unified linear mixed model for familial relatedness and population structure in genetic association studies. Genet Epidemiol. in press

Femenia M, Charles M, Boulling A, Rocha D. 2021. Identification and characterisation of mitochondrial sequences integrated into the ovine nuclear genome. Anim Genet

Hulot A, Laloë D, Jaffrézic F. 2021. A unified framework for the integration of multiple hierarchical clusterings or networks from multi-source data. BMC Bioinformatics. 22

Jehl F, Degalez F, Bernard M, Lecerf F, Lagoutte L, Désert C, Coulée M, Bouchez O, Leroux S, Abasht B, Tixier-Boichard M, Bed’hom B, Burlot T, Gourichon D, Bardou P, Acloque H, Foissac S, Djebali S, Giuffra E, Zerjal T, Pitel F, Klopp C, Lagarrigue S. 2021. RNA-Seq Data for Reliable SNP Detection and Genotype Calling: Interest for Coding Variant Characterization and Cis-Regulation Analysis by Allele-Specific Expression in Livestock Species. Front Genet.

Jehl F, Muret K, Bernard M, Boutin M, Lagoutte L, Désert C, Dehais P, Esquerré D, Acloque H, Giuffra E, Djebali S, Foissac S,  Derrien T, Pitel F, Zerjal T, Klopp C, Lagarrigue S. 2020An integrative atlas of chicken long non-coding genes and their annotations across 25 tissues. Sci Rep. 10, 20457

Lallias D, Bernard M, Ciobotaru C, Dechamp N, Labbé L, Goardon L, Le Calvez JM, Bideau M,Fricot A, Prézelin A, Charles M, Moroldo M, Cousin X, Bouchez O, Roulet A, Quillet E,  Dupont-Nivet M. 2021Sources of variation of DNA methylation in rainbow trout: combined effects of temperature and genetic background. Epigenetics. in press.

Leroy G, Verrier E. 2021. Contribution des ressources génétiques animales aux services écosystémiques liés au développement territorial. Essais. 6, 79-87

Mach N, Moroldo M, Rau A, Lecardonnel J, Le Moyec L, Robert C, Barrey E. 2021. Understanding the Holobiont: Crosstalk Between Gut Microbiota and Mitochondria During Long Exercise in Horse. Front. Mol. Biosci.  8, 656204 

Mariadassou M, Suez M, Sathyakumar S, Vignal A, Arca M, Nicolas P, Faraut T, Esquerré D, Nishibori M, Vieaud A, Chen CF, Manh Pham H, Roman Y, Hospital F, Zerjal T, Rognon X, Tixier-Boichard M. 2021. Unraveling the history of the genus Gallus through whole genome sequencing. Mol Phylogenet Evol. 158, 107044

Mollandin F, Rau A, Croiseau P. 2021. Evaluating the Interpretability of SNP Effect Size Classes in Bayesian Genomic Prediction Models. Hum Heredity, 85-86

Mollandin F, Rau A, Croiseau P. 2021. An evaluation of the predictive and mapping power of the BayesR model for genomic prediction. G3

Noyer M, Reoyo-Prats B, Aubert D, Bernard M, Verneau O, Palacios C. 2021. Corrrigendum: Particle-attached riverine bacteriome shifts in a pollutant-resistant and pathogenic community during a Mediterranean extreme storm event. Science Total Env. 732, 139047

Ramírez‑Ayala LC, Rocha D, Ramos‑Onsins SE, Leno‑Colorado J, Charles M, Bouchez O, Rodríguez‑Valera5 Y, Pérez‑Enciso, M, Ramayo‑Caldas Y. 2021. Whole‑genome sequencing reveals insights into the adaptation of French Charolais cattle to Cuban tropical conditions. Genet Sel Evol. 53, 3

Rau A, Manansala R, Flister MJ, Rui H, Jaffrézzic F, Laloë D, Auer PL. 2021Individualized multi-omic pathway deviation scores using multiple factor analysis. Biostatistics. in press.

Rognon X, Heams T, Ducos A, Charpentier R, Magnol L, Restoux G, Rigal J, Verrier E. 2021. Evolutions et perspectives des formations pour la génétique et la sélection animale. Ethnozootechnie. 109, 11-18

Sanchez MP, Rocha D, Charles M, Boussaha M, Hozé C, Brochard M, Delacroix-Buchet A, Grosperrin P, Boichard D. 2021. Sequence-based GWAS and post-GWAS analyses reveal a key role of SLC37A1 and ANKH genes and gene regulatory regions on bovine milk minerals. Sci Rep. 11, 7537

Schwochow D, Bornelöv S, Jiang T, Li J, Gourichon D, Bed’Hom B, DorshorstBJ, Chuong, C-M, Tixier-Boichard M, Andersson L. 2021. The feather pattern autosomal barring in chicken is strongly associated with segregation at the MC1R locus. Pigm cell Melanoma

Sellem E, Marthey S, Rau A, Jouneau L, Bonnet A, Le Danvic C, Guyonnet B, Kiefer H, Jammes H, Schibler L. 2021. Dynamics of cattle sperm sncRNAs during maturation, from testis to ejaculated sperm. Epig Chrom, 14

Silva RD, Gardyn OC, Hiemstra SJ, Marques JGO, Tixier-Boichard M, Moran, D. 2021. Rationalizing ex situ collection of reproductive materials for endangered livestock breed conservation. Ecol Econ. 181, 106916

Tixier-Boichard M, Fabre S, Dhorne-Pollet S, Goubil A, Acloque H, Vincent-Naulleau S, Ross P, Wang Y, Chanthavixay G, Cheng H, Ernst C, Leesburg V, Giuffra E, Zhou H, the Collaborative Working Group.  2021. Tissue Resources for the Functional Annotation of Animal Genomes. Front Genet. 12

Tixier-Boichard M, Lecerf F, Heraulf F, Bardou P, Klopp C. 2020. The "1000 Gallus Genomes" project: sharing sequence data to better exploit them. INRA Prod Anim. 33, 189-202

Verrier E, Markey L, Lauvie A. 2021. Valorisation des races animales locales par des produits liés à leur territoire : cinq leçons tirées de cas variés en France. Essais. 6, 35-45

Verrier E, Rognon X, Patin S, Del Porto P. 2021. L'héritage de Jacques Bougler. Ethnozootechnie. 109, 7-10

Zerjal T, Härtle S, Gourichon D, Guillory V, Bruneau N, Laloë D, Pinard‑van der Laan M-H, Trapp S, Bed’hom B, Quéré P. 2021. Assessment of trade-ofs between feed efciency, growth-related traits, and immune activity in experimental lines of layer chickens. Genet Sel Evol. 53, 44


Auclair-Ronzaud J, Benoist S, Dubois C, Frejaville M, Jousset T, Jaffrézic F, Wimel L, Chavatte-Palmer P. 2020. No-contact microchip monitoring of body temperature in yearling horses. J Equine Vet Sci. 86, 102892 

Auclair-Ronzaud J, Jousset T, Dubois C, Wimel L, Jaffrezic F, Chavatte-Palmer P. 2020. No-contact microchip measurements of body temperature and behavioural changes prior to foaling. Theriogenology. 157, 399-406

Bazile J, Jaffrezic F, Dehais P, Reichstadt M, Klopp C, Laloe D, Bonnet M. 2020. Molecular signatures of muscle growth and composition deciphered by the meta-analysis of age-related public transcriptomics data. Physiol Genomics. 52, 322-332

Cho Y, Rau A, Reiner A, Auer PL. 2020. Mendelian randomization analysis with survival outcomes. Genet Epidemiol. 2020; 1-8

Destoumieux-Garzón D, Bonnet P, Teplitsky C, Criscuolo F, Henry PY, Mazurais D, Prunet P, Salvat G, Usseglio-Polatera P, Verrier E, Friggens N. 2020. OneARK: Strengthening the links between animal production science and animal ecology. Position Paper. Peer community in Animal Science. 1, 26

Doublet AC, Restoux G, Fritz S, Balberini L, Fayolle G, Hozé C, Laloë D, Croiseau P. 2020. Intensified use of reproductive technologies and reduced dimensions of breeding schemes put genetic diversity at risk in Dairy cattle breeds. Animals (Basel). 10, 1903

Dupont C, Hulot  A, Jaffrezic F, Faure C, Czernichow S, di Clemente N, Racine C, Chavatte-Palmer P, Lévy R, Alifert group. 2020. Female ponderal index at birth and idiopathic infertility. J Dev Orig Health Dis. 11, 154-158

Fraslin C, Phocas F, Bestin A, Charles M, Bernard M, Krieg F,  Dechamp N,  Ciobotaru C, Hozé C, Petitprez F, Milhes M,  Lluch J, Bouchez O, Poncet C, Hocdé P, Haffray P, Guiguen  Y, Quillet E. 2020. Genetic determinism of spontaneous masculinisation in XX female rainbow trout: new insights using medium throughput genotyping and whole-genome sequencing. Sci Rep. 10, 17693

Gervais L, Hewison AJM, Morellet N, Bernard M, Merlet J, Cargnelutti B, Chaval Y, Pujol B, Quéméré E. 2020. Pedigree-free quantitative genetic approach provides evidence for heritability of movement tactics in wild roe deer. J Evol Biol. 33, 595-607

Godichon-Baggioni A, Maugis-Rabusseau C, Rau A. 2020. Multiview cluster aggregation and splitting, with an application to multiomic breast cancer data. Ann Appl Stat. 14, 752-767 

Grau ET, Charles M, Femenia M, Rebours E, Vaiman A, Rocha D. 2020. Survey of mitochondrial sequences integrated into the bovine nuclear genome. Sci Rep. 10, 2077

Hammer SE, Ho CH, Ando A, Rogel-Gaillard C, Charles M, Tector M, TectorAJ, Lunney JK. 2020. Importance of the major histocompatibility complex (Swine Leukocyte Antigen) in swine health and biomedical research. Annu Rev Anim Biosci. 8, 171-198

Hulot A, Chiquet J, Jaffrezic F, Rigaill G. 2020. Fast tree aggregation for consensus hierarchical clustering. BMC Bioinformatics. 21, 120

Laoun A, Harkat S, Lafri M, Gaouar SBS, Belabdi I, Ciani E, De Groot M, Blanquet V, Leroy G, Rognon X, Da Silva A. 2020. Inference of breed structure in farm animals: Empirical comparison between SNP and microsatellite performance. Genes (Basel), 11 - pii: E57

Lévy E, Jaffrezic F, Laloë D, Rezaei H, Huang ME, Béringue V, Davy M, Vernis L. 2020. PiQSARS: A pipeline for quantitative and statistical analyses of ratiometric fluorescent biosensors. MethodsX. 7, 101034

Lien CY, Tixier-Boichard M, Wu SW, Chen CF. 2020. Identification of QTL and loci for egg production traits to tropical climate conditions in chickens. Livest Sci. 234, 103980

Mariadassou M, Ramayo-Caldas Y , Charles M, Femenia M, Renand G, Rocha D. 2020. Detection of selection signatures in Limousin cattle using wholegenome resequencing. Anim Genet. 41, 815-819

Moroldo M, Munyaka PM, Lecardonnel J, Lemonnier G, Venturi E, Chevaleyre C, Oswald IP, Estellé J, Rogel-Gaillard C. 2020. Integrative analysis of blood and gut microbiota data suggests a non-alcoholic fatty liver disease (NAFLD)-related disorder in French SLAdd minipigs. Sci Rep. 10, 234

Morris KM, Hindle MM, Boitard S, Burt DW, Danner AF, Eory L, Forrest HL, Gourichon D, Gros J, Hillier LW, Jaffredo T, Khoury H, Lansford R, Leterrier C, Loudon A, Mason AS, Meddle SL, Minvielle F, Minx P, Pitel F, Seiler JP, Shimmura T, Tomlinson C, Vignal A, Webster RG, Yoshimura T, Warren WC, Smith J. 2020. The quail genome: insights into social behaviour, seasonal biology and infectious disease response. BMC Biol, 18-14

Neou M, Villa C, Armignacco R, Jouinot A, Raffin-Sanson ML, Septier A, Letourneur F, Diry S, Diedisheim M, Izac B, Gaspar C, Perlemoine K, Verjus V, Bernier M, Boulin A, Emile JF, Bertagna X, Jaffrezic F, Laloe D, Baussart B, Bertherat J, Gaillard S, Assié G. 2020. Pangenomic classification of pituitary neuroendocrine Tumors. Cancer Cell. 37, 1-12

Noyer M, Reoyo-Prats B, Aubert D, Bernard M, Verneau O, Palacios C. 2020. Particle-attached riverine bacteriome shifts in a pollutant-resistant and pathogenic community during a Mediterranean extreme storm event. Sci Total Environ. 732, 139047

Passet B, Castille J, Makhzami S, Truchet S, Vaiman A, Floriot S,  Moazami-Goudarzi K, Vilotte M, Gaillard AL, Helary L, Bertaud M, Andréoletti O, Vaiman D, Calvel P, Daniel-Carlier N, Moudjou M, Beauvallet C, Benharouga M, Laloë D, Mouillet-Richard S, Duchesne A, Béringue V, Vilotte JL. 2020. The Prion-like protein Shadoo is involved in mouse embryonic and mammary development and differentiation. Sci Rep, 10-6765

Pegram CL, Bonnett BN, Skarp H, Arnott G, James H, Hedhammar A, Leroy G, Llewellyn-Zaidi A, Seath IJ, O’Neill DG. 2020. Moving from information and collaboration to action: report from the 4th international dog health workshop, Windsor in May 2019. Canine Med Genet. 7, 4

Sellem E, Marthey S, Rau A, Jouneau L, Bonnet A, Perrier JP, Fritz S, Le Danvic C, Boussaha M, Kiefer H, Jammes H, Schibler L. 2020. A comprehensive overview of bull sperm‑borne small non‑coding RNAs and their diversity across breeds. Epigenetics Chromatin, 13-19

Tixier-Boichard M. 2020. From the jungle fowl to highly performing chickens: are we reaching limits? World Poult Sci J. 76, 2-17

Verrier E. 2020. Les animaux et l’élevage dans les toponymes des Préalpes franco-suisses. Ethnozootechnie. 107, 25-34

Zomerdijk F, Hiemstra SJ, d'Arbaumont M, Tixier-Boichard M, Boettcher P. 2020. Quality management practices of gene banks for livestock: A global review. Biopreserv Biobank. 18, 244-253


Auclair-Ronzaud J, Benoist S, Dubois C, Frejaville M, Jousset T, Jaffrezic F, Wimel L, Chavatte-Palmer P. 2019. No-contact microchip monitoring of body temperature in yearling horses. J Eq Vet Sci. 86, 102892.

Biase FH, Hue I, Dickinson SE, Jaffrezic F, Laloe D, Lewin HA, Sandra O. 2019. Fine-tuned adaptation of embryo-endometrium pairs at implantation revealed by transcriptome analyses in Bos taurus. PLoS Biol. 17, e3000046

Boushaba N, Boujenane I, Moazami-Goudarzi K, Flori L, Saïdi-Mehtar N, Tabet-Aoul N, Laloë D. 2019. Genetic diversity and relationships among six local cattle populations in semi-arid areas assessed by a bovine medium-density single nucleotide polymorphism data. Animal. 13, 8-14.

D'Ambrosio J, Phocas F, Haffray P, Bestin A, Brard-Fudulea S, Poncet C, Quillet E, Dechamp N, Fraslin C, Charles M, Dupont-Nivet M. 2019. Genome-wide estimates of genetic diversity, inbreeding and effective size of experimental and commercial rainbow trout lines undergoing selective breeding. Genet Sel Evol. 51, 26

Dhara SP, Rau A, Flister MJ, Recka NM, Laiosa MD, Auer PL, Udvadia AJ. 2019. Cellular reprogramming for successful CNS axon regeneration is driven by a temporally changing cast of transcription factors. Sci Rep. 9, 14198

Dhorne-Pollet S, Crisci E, Mach N, Renson P, Jaffrézic F, Marot G, Maroilley T, Moroldo M, Lecardonnel J, Blanc F, Bertho N, Bourry O, Giuffra E. 2019. The miRNA-targeted transcriptome of porcine alveolar macrophages upon infection with Porcine Reproductive and Respiratory Syndrome. Virus. Sci Rep. 9-3160 

Doublet AC, Croiseau P, Fritz S, Michenet A, Hozé C, Danchin‑Burge C, Laloë D, Restoux G. 2019. The impact of genomic selection on genetic diversity and genetic gain in three French dairy cattle breeds. Genet sel Evol. 51- 52

Dupont C, Hulot A, Jaffrezic F, Faure C, Czernichow S, di Clemente N, Racine C, Chavatte-Palmer P, Lévy R, Alifert group. 2019. Female ponderal index at birth and idiopathic infertility. J Dev Orig Health Dis. in press

Flori L, Moazami-Goudarzi K, Alary V, Araba A, Boujenane I, Boushaba N, Casabianca F, Casu S, Ciampolini R, Coeur D'acier A, Coquelle C, Delgado JV, El-Beltagi A, Hadjipavlou G, Jousselin E, Landi V, Lauvie A, Lecomte P, Ligda C, Marinthe C, Martinez A, Mastrangelo S, Menni D, Moulin CH, Osman MA, Pineau O, Portolano B, Rodellar C, Saidi-Mehtar N, Sechi T, Sempere G, Thevenon S, Tsiokos D, Laloë D, Gautier M. 2019. A genomic map of climate adaptation in Mediterranean cattle breeds. Mol Ecol. in press.

Foissac S, Djebali S, Munyard K, Vialaneix N, Rau A, Muret K, Esquerré D, Zytnicki M, Derrien T, Bardou P, Blanc F, Cabau C, Crisci E, Dhorne-Pollet S, Drouet F, Faraut T, Gonzalez I, Goubil A, Lacroix-Lamandé S, Laurent F, Marthey S, Marti-Marimon M, Momal-Leisenring R, Mompart F, Quéré P, Robelin D, Cristobal MS, Tosser-Klopp G, Vincent-Naulleau S, Fabre S, Pinard-Van der Laan MH, Klopp C, Tixier-Boichard M, Acloque H, Lagarrigue S, Giuffra E. 2019. Multi-species annotation of transcriptome and chromatin structure in domesticated animals. BMC Biol. 17, 108.

Fraslin C, Brard-Fudulea S, D’Ambrosio J, Bestin A, Charles M, Haffray P, Quillet E, Phocas F. 2019. Rainbow trout resistance to bacterial cold water disease: two new quantitative trait loci identified after a natural disease outbreak on a French farm. Anim Genet. 50, 293-297

Gervais L, Perrier C, Bernard M, Merlet J, Pemberton JM, Pujol B, Quéméré E. 2019. RAD-sequencing for estimating genomic relatedness matrix-based heritability in the wild: A case study in roe deer. Mol Ecol Resour, in press

Godichon-Baggioni A, Maugis-Rabusseau C, Rau A. 2019. Clustering transformed compositional data using K-means, with applications in gene expression and bicycle sharing system data. J Appl Stat. 46, 47, 65

Helary L, Castille J, Passet B, Vaiman A, Beauvallet C, Jaffrezic F, Charles M, Tamzini M, Baraige F, Letheule M, Laubier J, Moazami-Goudarzi K, Vilotte JL, Blanquet V, Duchesne A. DNAJC2 is required for mouse early embryonic development. Biochem Biophys Res Commun. 516, 258-263

Hue I, Dufort I, Vitorino Carvalho A, Laloe D, Peynot N, Degrelle SA, Viebahn C, Sirard MA. 2019. Different pre-implantation phenotypes of bovine blastocysts produced in vitro. Reproduction. 157, 163-178

Jehl F, Désert C, Klopp C, Brenet M, Rau A, Leroux S, Boutin M, Lagoutte L, Muret K, Blum Y, Esquerré D, Gourichon D, Burlot T, Collin A, Pitel F, Benani A, Zerjal T, Lagarrigue S. 2019. Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach. BMC Genomics. 20, 1033

Kalo D, Vitorino Carvalho A, Archilla C, Duranthon V, Moroldo M, Levin Y, Kupervaser M, Smith Y, Roth Z. 2019. Mono(2-ethylhexyl) phthalate (MEHP) induces transcriptomic alterations in oocytes and their derived blastocysts. Toxicology. 421, 59-73

Li JY, Bed'hom B, Marthey S, Valade M, Dureux A, Moroldo M, Pechoux C, Coville JL, Gourichon D, Vieaud A, Dorshorst B, Andersson L, Tixier-Boichard M. 2019. A missense mutation in TYRP1 causes the chocolate plumage color in chicken and alters melanosome structure. Pigment Cell Melanoma Res. 32, 381-39

Muret K, Désert C, Lagoutte L, Boutin M, Gondret F, Zerjal T, Lagarrigue S. 2019. Long noncoding RNAs in lipid metabolism: literature review and conservation analysis across species. BMC Genomics. 20, 882

Plasterer C, Tsaih SW, Lemke A, Schilling R, Dwinell M, Rau A, Aue P, Rui H, Fliste MJ. 2019. Identification of a rat mammary tumor risk locus that Is syntenic with the commonly amplified 8q12.1 and 8q22.1 regions in human breast cancer patients. G3 (Bethesda). 9, 1739-1743

Ramayo-Caldas Y, Zingaretti L, Popova M, Estelle J, Bernard A, Pons N, Bellot P, Mach N, Rau A, Roume H, Perez-Enciso M, Faverdin P, Edouard N, Ehrlich D, Morgavi DP, Renand G. 2019. Identification of rumen microbial biomarkers linked to methane emission in Holstein dairy cows. J Anim Breed Genet. 137, 49-59

Rau A, Dhara SP, Udvadia AJ, Auer P. 2019. Regeneration Rosetta : an interactive web application to explore regeneration-associated gene expression and chromatin accessibility. G3 (Bethesda). 9, 3953-3959.

Rau A, Flister M Rui H, Auer PL. 2019. Exploring drivers of gene expression in the Cancer Genome Atlas. Bioinformatics. 35, 62-68

Robic A, Morisson M, Leroux S, Gourichon D, Vignal A, Thebault N, Fillon V, Minvielle F, Bed'Hom B, Zerjal T, Pitel F. 2019. Two new structural mutations in the 5' region of the ASIP gene cause diluted feather color phenotypes in Japanese quail. Genet Sel Evol. 51, 12

Sellier P, Boichard D, Verrier E. 2019. La génétique animale à l‘Inra : soixante ans d'une histoire scientifique en prise avec le monde de la sélection et riche en rebondissements technologiques. Histoire Recherche Contemporaine. 8, 86-98

Thelie A, Bailliard A, Seigneurin F, Zerjal T, Tixier-Boichard M, Blesbois E. 2019. Chicken seme cryopreservation and use for the restoration of rare genetic resources. Poult Sci. 98, 447-455

Vignal A, Boitard S, Thebault N, Dayo GK, Yapi-Gnaore V, Karim IYA, Berthouly-Salazar C, Palinkas-Bodzsar N, Guemene D, Thibaud-Nissen F, Warren WC, Tixier-Boichard M, Rognon X. 2019. A guinea fowl genome assembly provides new evidence on evolution following domestication and selection in galliformes. Mol Ecol Resour. 19, 997-1014

Wang S, Strandberg E, Viklund A, Windig JJ, Malm S, Lewis T, Laloë D, Leroy G. 2019. Genetic improvement of canine hip dysplasia through sire selection across countries. Vet J. 248, 18-24


Bílková B, Świderská Z, Zita L, Laloë D, Charles M, Benes V, Stopka P, Vinkler M. 2018. Domestic fowl breed variation in egg white protein expression: application of proteomics and transcriptomics. J Agric Food Chem. 66, 11854-11863

Boushaba N, Boujenane I, Moazami-Goudarzi K, Flori L, Saïdi-Mehtar N, Tabet-Aoul N, Laloë D. 2018. Genetic diversity and relationships among six local cattle populations in semi-arid areas assessed by a bovine medium-density single nucleotide polymorphism data. Animal, early print

Chassier M, Barrey E, Robert C, Duluard A, Danvy S, Ricard A. 2018. Genotype imputation accuracy in multiple equine breeds from medium- to high-density genotypes. J Anim Breed Genet. 135, 420-431

Coyral-Castel S, Ramé C, Cognié J, Lecardonnel J, Marthey S, Esquerré D, Hennequet-Antier C, Eli S, Fritz S, Boussaha M, Jaffrézic F, Dupont J. 2018. KIRREL is differentially expressed in adipose tissue from 'fertil plus ' and 'fertil-' cows: in vitro role in ovary? Reproduction. 155, 183-198.

de Verdal H, Komen H, Quillet E, Chatain B,  Allal F, Benzie JAH  Vandeputte M. 2018. Improving feed efficiency in fish using selective breeding: a review. Rev Aquacult. 10, 833-851

de Verdal H, Vandeputte M, Mekkawy W, Chatain B, Benzie JAH. 2018. Quantifying the genetic parameters of feed efficiency in juvenile Nile tilapia Oreochromis niloticus. BMC Genet. 19, 105

Demazeau G, Plumecocq A, Lehours P, Martin P, Couedelo L, Billeaud C. 2018. A new high hydrostatic pressure process to assure the microbials safety of human milk while preserving the biological activity of its main components. Front Public Health. 6, 306

Ducrocq V, Laloë D, Swaminathan M, Rognon X, Tixier-Boichard M, Zerjal T. 2018. Genomics for ruminants in developing countries: from principles to practice. Front Genet. 9, 251

Escudié F, Auer L,  Bernard M, Mariadassou M,  Cauquil L, Vidal K, Maman S, Hernandez-Raquet G, Combes S, Pasca G. 2018. FROGS: Find, Rapidly, OTUs with Galaxy Solutio. Bioinformatics. 34, 1287-1294

Eynard SE,Croiseau P, Laloë D, Fritz S,Calus MPL, Restoux G. 2018. Which individuals to choose to update the reference population? Minimizing the loss of genetic diversity in animal genomic selection programs. G3 (Bethesda). 8, 113-121.

Eynard SE, Windig JJ, Hulsegge I, Hiemstra SJ, Calus MPL. 2018. The impact of using old germplasm on genetic merit and diversityA cattle breed case study. J Anim Breed Sci. 135, 311-322

Fraslin C, Dechamp N, Bernard M, Krieg F, Hervet C, Guyomard R, Esquerré D, Barbieri J, Kuchly C, Duchaud E, Boudinot P, Rochat T, Bernardet JF, Quillet E. 2018. Quantitative trait loci for resistance to Flavobacterium psychrophilum in rainbow trout: effect of the mode of infection and evidence of epistatic interactions. Genet Sel Evol. 50, 60

Grobler R, Visser C, Capitan A, van Marie-Koster E. 2018. Validation of the POLLED Celtic variant in South African Bonsmara and Drakensberger beef cattle breeds. Livest Sci. 217, 136-139

He B, Tjhung KF, Bennett NJ, Chou Y, Rau A, Huang J, Derda R. 2018. Compositional bias in naïve and chemically-modified phage-displayed libraries uncovered by paired-end deep sequencing. Sci Rep. 8, 1214.

Hubert JN, Zerjal T, Hospital F. 2018. Cancer- and behavior-related genes are targeted by selection in the Tasmanian devil (Sarcophilus harrish). PLoS One. 13, e0201838

Lansade L, Foury A, Reigner F, Vidament M, Guettier E, Bouvet G, Soulet D, Parias C, Ruet A, Mach N, Levy F, Moisan MP. 2018. Progressive habituation to separation alleviates the negative effects of weaning in the mother and foal. Psychoneuroendocrinology. 97, 59-68

Legradi JB Di Paolo C, Kraak MHS, van der Geest HG, Schymanski EL, Williams AJ Dingemans, MML Massei, R, Brack W, Cousin X, Begout ML, van der Oost R, Carion A, Suarez-Ulloa V, Silvestre F, Escher BI, Engwall M, Nilen G, Keiter SH, Pollet D, Waldmann, P, Kienle C; Werner I, Haigis AC, Knapen D, Vergauwen L, Spehr M, Schulz W, Busch W, Leuthold D, Scholz S, vom Berg CM, Basu N, Murphy CA, Lampert, A, Kuckelkorn J, Grummt T, Hollert H. 2018. An ecotoxicological view on neurotoxicity assessment. Environ Sci Eur. 30, 46

Marete A, Guldbrandtsen B, Fritz S, Lund MS, Sahana G, Boichard D. 2018. A meta-analysis including pre-selected sequence variants associated with seven traits in three French dairy cattle populations. Front Genet. 9, 522

Maroilley T, Berri M, Lemonnier G, Esquerré D, Chevaleyre C, Mélo S, Meurens F, Coville JL, Leplat JJ, Rau A,  Bed’hom B, Vincent-Naulleau S, Mercat MJ, Billon Y, Lepage P, Rogel-Gaillard C, Estellé J. 2018. Immunome differences between porcine ileal and jejunal Peyer’s patches revealed by global transcriptome sequencing of gut-associated lymphoid tissues. Sci Rep, 8-9077

Mondet F, Rau A, Klopp C, Rohmer M, Severac D, Le Conte Y, Alaux C. 2018. Transcriptome profiling of the honeybee parasite Varroa destructor provides new biological insights into the mite adult life cycle. BMC Genomics, 19-328.

Muñoz M, Bozzi R, García F, Núñez Y, Geraci C, Crovetti A, García-Casco J, Alves E, Škrlep M, Charneca R, Martins JM, Quintanilla R, Tibau J, Kušec G, Djurkin-Kušec I, Mercat MJ, Riquet J, Estellé J, Zimmer C, Razmaite V, Araujo JP, Radović Č, Savić R, Karolyi D, Gallo M, Čandek-Potokar M, Fontanesi L, Fernández  AI, Óvilo C. 2018. Diversity across major and candidate genes in European local pig breed. PLoS One. 13, e0207475

Narayana SG, Miglior F, Naqvi SA, Malchiodi F, Martin P, Barkema HW. 2018. Genetic analysis of subclinical mastitis in early lactation of heifers using both linear and threshold models. J Dairy Sci. 101, 11120-11131

Rau A, Maugis-Rabusseau C. 2018. Transformation and model choice for RNA-seq co-expression analysis. Brief Bioinform. 19, 425-436.

Rigaill G, Balzergue S, Brunaud V, Blondet E, Rau A, Rogier O, Caius J, Maugis-Rabusseau C, Soubigou-Taconnat, L, Aubourg S, Lurin C, Martin-Magniette ML, Delannoy E. 2018. Synthetic data sets for the identification of key ingredients for RNA-seq differential analysis. Brief Bioinform. 19, 65-76.

Rochus CM, Tortereau F, Plisson-Petit F, Restoux G, Moreno-Romieux C, Tosser-Klopp G, Servin B. 2018. Revealing the selection history of adaptive loci using genome-wide scans for selection: an example from domestic sheep. BMC Genomics. 19, 71.

Song X, Marandel L, Skiba-Cassy S, Corraze G, Dupont-Nivet M, Quillet E, Geurden I, Panserat S. 2018. Regulation by dietary carbohydrates of intermediary metabolism in liver and muscle of two isogenic lines of Rainbow trout. Front Physiol. 9, 1579

Verrier ER, Genet C, Laloë D, Jaffrezic F, Rau A, Esquerre D, Dechamp N, Ciobotaru C, Hervet H, Krieg F, Jouneau L, Klopp C, Quillet E, Boudinot P. 2018.  Genetic and transcriptomic analyses provide new insights on the early antiviral response to VHSV in resistant and susceptible rainbow trout. BMC Genomics. in press.

Vanbergue E, Peyraud JL, Ferlay A, Miranda G, Martin P, Hurtaud C. 2018. Effects of feeding level, type of forage and milking time on milk lipolytic system in dairy cows. Livest Sci. 217, 116-126

Wang S, Laloë D, Missant FM, Malm S, Lewis T, Verrier E, Strandberg E, Bonnet  BN,  Leroy G. 2018. Breeding policies and management of pedigree dogs in 15 national kennel clubs. Vet J. 234, 130-135.


Beaumont M, Andriamihaja M, Arman L, Grauso M, Jaffrézic F, Laloë D, Moroldo M, Davila AM, Tomé D, Blachier F and Lan A. 2017Epithelial response to a high-protein diet in rat colon. BMC Genomics. 18, 116

Danchin-Burge C, Danvy S, Laloë D, Verrier E. 2017. Création d’un observatoire de la VARiabilité génétique des RUMinants et des Equidés (VARUME).  Innovations Agronomiques. 55, 235-245

Duchesne A, Vaiman A, Castille J, Beauvallet C, Gaignard P, Floriot S, Rodriguez S, Vilotte M, Boulanger L, Passet B, Albaric O, Guillaume F, Boukadiri A, Richard L, Bertaud M, Timsit E, Guatteo R, Jaffrézic F, Calvel P, Helary L, Mahla R, Esquerré D, Péchoux C, Liuu S, Vallat JM, Boichard D, Slama A, Vilotte JL. 2017. Bovine and murine models highlight novel roles for SLC25A46 in mitochondrial dynamics and metabolism, with implications for human and animal health. PLoS Genet. 13, e1006597

Legrand E, Boulange-Lecomte C, Restoux G, Tremolet G,  Duflot A, Forget-Leray J. 2017. Individual and mixture acute toxicity of model pesticides chlordecone and pyriproxyfen in the estuarine copepod Eurytemora affinis. Environ Sci Pollut Res. 24, 5976-5984
Leroy G, Baumung R, Notter D, Verrier E, Wurzinger M, Scherf B. 2017. Stakeholder involvement and the management of animal genetic resources across the world. Livest Sci. in press.

Leroux S, Gourichon D, Leterrier C, Labrune Y, Coustham V, Rivière S, Zerjal T, Coville JL, Morisson M, Minvielle F, Pitel F. 2017Embryonic environment and transgenerational effects in quail. Genet Sel Evol. 49, 14

Lien CY, Tixier-Boichard M, Wu SW, Wang WF, Ng CS, Chen CF.  2017. Detection of QTL for traits related to adaptation to sub-optimal climatic conditions in chickens. Genet Sel Evol. 49, 39.

Manirakiza J, Hatungumukama G, Thévenon S, Gautier M, Besbes B, Flori L, Detilleux J. 2017. Effect of genetic European taurine ancestry on milk yield of Ankole-Holstein crossbred dairy cattle in mixed smallholders system of Burundi highlands. Anim Genet. 48, 544-550

Monneret G, Jaffrézic F, Rau A, Zerjal T, Nuel G. 2017. Identification of marginal causal relationships in gene networks from observational and interventional expression data. PLoS One. 12, e0171142

O’Neill DG, Keijser, SFA, Hedhammar A, Kisko C, Leroy G, Llewellyn-Zaidi A, Malm S, Olson PN, Packer RMA, Rousselot JF, Seath IJ, Stull JW, Bonnett BN. 2017. Moving from information and collaboration to action: report from the 3rd international Dog Health Workshop, Paris in April 2017. Canine Genet Epidemiol. 4, 6

Phocas F, Belloc C, Bidanel J, Delaby L, Dourmad JY, Dumont B, Ezanno P, Fortun-Lamothe L,  Foucras G, Frappat B, Gonzalez-Garcia E, Hazard D, Larzul C, Lubac S, Mignon-Grasteau S, Moreno-Romieux C, Tixier-Boichard M, Brochard M. 2017. Quels programmes d’amélioration génétique des animaux pour des systèmes d’élevage agro-écologiques ? Inra Prod Anim. 30, 31-46.

Roy J, Tardieu F, Tixier-Boichard M, Schurr U. 2017. European infrastructures for sustainable agriculture. Nat Plants. 3, 756-758

Sauvage C, Rau A, Aichholz C, Chadoeuf J, Sarah G, Ruiz M, Santoni S, Causse M, David J, Glémin S. 2017. Domestication rewired gene expression and nucleotide diversity patterns in tomato. Plant J. ahead of print.

Schwochow Thalmann D, Ring H, Sundström E, Cao X, Larsson M, Kerje S, Höglund A, Fogelholm J, Wright D, Jemth P, Hallböök F, Bed'Hom B, Dorshorst B, Tixier-Boichard M, Andersson L. 2017. The evolution of Sex-linked barring alleles in chickens involves both regulatory and coding changes in CDKN2A. PLoS Genet. 13, e1006665.

Tiret M, Hospital F. Blocks of chromosomes identical by descent in a population: Models and predictions. PLoS One. 12, e0187416

Wang S, Leroy G, Malm S, Lewis T, Strandberg E, Fikse WF. 2017. Merging pedigree databases to describe and compare mating practices and gene flow between pedigree dogs in France, Sweden and the UK. J Anim Breed Genet. 134, 152-161.


Barret P, Bourguet D, Duée PH, Gerber S, Le Roux X, Tixier-Boichard M. 2016. Éthique et biodiversité : questions posées à et par la recherche agronomique. Nature Sciences Sociétés. 24, 270-276

Boitard S, Boussaha M, Capitan A, Rocha D, Servin B. 2016. Uncovering adaptation from sequence data: Lessons from genome resequencing of four cattle breeds. Genetics. 203, Early Online

Chadi S, Polyte J, Lefevre L, Castille J, Ehanno A, Laubier J, Jaffrézic F, Le Provost F. 2016. Phenotypic and molecular alterations in the mammary tissue of R-spondin1 knock-out mice during pregnancy. PLoS One. 11, e0162566

Couix N, Gaillard C, Lauvie A, Mugnier S, Verrier E. 2016. Breeds both locally adapted and locally adopted, a condition for the sustainability of livestock activities. Cahiers Agriculture. 25, 650009

Davi H, Cailleret M, Restoux G, Amm A, Pichot C, Fady B. 2016. Disentangling the factors driving tree reproduction. EcoSphere. 7, e01389

Eynard SE, Windig JJ, Hiemstra SJ, Calus MPL. 2016. Whole‑genome sequence data uncover loss of genetic diversity due to selection. Genet Sel Evol. 48-33

Hubert JN, Allal F, Hervet C, Ravakarivelo M, Jeney Z, Vergnet A,  Guyomard R, Vandeputte M. 2016. How could fully scaled carps appear in natural waters in Madagascar ? Proc Royal Soc Biol Sci. 283, 1-8

Jimenez Mena B, Tataru P, Brondum RF, Sahana G, Guldbrandtsen B, Bataillon T. 2016. One size fits all? Direct evidence for the heterogeneity of genetic drift throughout the genome. Biol Lett. 12, 1-4

Jimenez Mena B, Hospital F, Bataillon T. 2016. Heterogeneity in effective population size and its implications in conservation genetics and animal breeding. Conservation Genet Res. 8, 35-41

Jimenez Mena B, Schad K, Hanna N, Lacy RC. 2016. Pedigree analysis for the genetic management of group-living species. Ecol Evol. 6, 3067- 3078 

Loyau T, Zerjal T, Rodenburg T B, Fablet J, Tixier-Boichard M, Pinard-Van der Laan MH, Mignon-Grasteau S. 2016. Heritability of body surface temperature in hens estimated by infrared thermography at normal or hot temperatures and genetic correlations with egg and feather quality. Animal, in press

Mahammi FZ, Gaouar SB, Laloë D, Faugeras R, Tabet-Aoul N, Rognon X, Tixier-Boichard M, Saidi-Mehtar N. 2016. A molecular analysis of the patterns of genetic diversity in local chickens from western Algeria in comparison with commercial lines and wild jungle fowls. J Anim Breed Genet. 133, 59-70

Mazet O, Rodriguez W, Grusea S, Boitard S, Chikhi L. 2016. On the importance of being structured: instantaneous coalescence rates and human evolution-lessons for ancestral population size inference? Heredity. 116, 362-371

Montazer-Torbati F, Boutinaud M, Brun N, Richard C, Neveu A, Jaffrézic F, Laloë D, LeBourhis D, Nguyen M, Chadi S, Jammes H, Renard JP, Chat S, Boukadiri A, Devinoy E. 2016. Differences during the first lactation between cows cloned by somatic cell nuclear transfer and non-cloned cows. J Dairy Sci. Preaccepted

Pham MH, Tran XH, Berthouly-Salazar C, Tixier-Boichard M, Chen CF, Lee YP. 2016. Monitoring of genetic diversity in Taiwan conserved chickens assessed by pedigree and molecular data. Livest Sci. 184, 85- 9

Phocas F, Belloc C, Bidanel J, Delaby L,  Dourmad JY, Dumont B, Ezanno P,  Fortun-Lamothe L, Foucras G, Frappat B, González-García E,  Hazard D, Larzul C, Lubac S, Mignon-Grasteau S, Moreno CR, Tixier-Boichard M, Brochard. 2016. Review: Towards the agroecological management of ruminants, pigs and poultry through the development of sustainable breeding programmes: I-selection goals and criteria. Animal. in press.

Phocas F, Belloc C, Bidanel J, Delaby L,  Dourmad JY, Dumont B, Ezanno P,  Fortun-Lamothe L, Foucras G, Frappat B, González-García E,  Hazard D, Larzul C, Lubac S, Mignon-Grasteau S, Moreno CR, Tixier-Boichard M, Brochard. 2016. Review: Towards the agroecological management of ruminants, pigs and poultry through the development of sustainable breeding programmes: II. Breeding strategies. Animal. in press.

Rigail G, Balzergue S, Brunaud V, Blondet E, Rau A, Rogier O, Caius J, Maugis Rabusseau C, Soubigou Taconnat L, Aubourg S, Lurin C, Martin Magniette ML, Delannoy E. 2016. Synthetic data sets for the identification of key ingredients for RNA-seq differential analysis. Brief Bioinform. pii: bbw092.

Roux PF, Frésard L, Boutin M, Leroux S, Klopp C, Djari A, Esquerré D, Martin PG, Zerjal T, Gourichon D, Pitel F, Lagarrigue S. 2016. The extent of mRNA editing is limited in chicken liver and adipose, but impacted by tissular context, genotype, age, and feeding as exemplified with a conserved edited site in COG3. G3 (Bethesda). 6, 321-335

Santana ML, Pereira RJ, Bignardi AB, Ayres DR, Menezes GRO, Silva LOC, Leroy G, Machado CHC, Josahkian LA, Albuquerque LG. 2016. Structure and genetic diversity of Brazilian Zebu cattle breeds assessed by pedigree analysis. Livest Sci. 187, 6-15

Simon M, Lopez-Garcia P, Deschamps P, Restoux G, Bertolino P, Moreira D, Jardillier L. 2016. Resilience of freshwater communities of small microbial eukaryotes undergoing severe drought events. Front Microbiol. 7, 812

Tuggle CK, Giuffra E, White SN, Clarke L, Zhou H, Ross PJ, Acloque H, Reecy JM, Archibald A, Bellone RR, Boichard M, et al. 2016. GO-FAANG meeting: a Gathering On Functional Annotation of Animal Genomes. Anim Genet. 47, 528-533

Wang S, Leroy G, Malm S, Lewis T, Strandberg E, Fikse WF. 2016. Merging pedigree databases to describe and compare mating practices and gene flow between pedigree dogs in France, Sweden and the UK. J Anim Breed Genet. 2016, 1-10


Barbillon P, Thomas M, Goldringer I, Hospital F, Robin S. 2015. Network impact on persistence in a finite population dynamic diffusion model: application to an emergent seed exchange network. J Theor Biol. 365, 365-376

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Berthier D, Peylhard M, Dayo GK, Flori, L, Sylla S., Bolly S, Sakande H, Chantal I, Thevenon S. 2015. A comparison of phenotypic traits related to trypanotolerance in five west african cattle breeds highlights the value of shorthorn taurine breeds. PLoS One. 10, e0126498

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