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

Dernière mise à jour : Mai 2018

Menu Logo Principal AgroParisTech Université Paris-Saclay


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


Recent publications

Al Kalaldeh M, Swaminathan M, Gaundare Y, Joshi S, Aliloo H, Strucken EM, Ducrocq V, Gibson JP. 2021. Genomic evaluation of milk yield in a smallholder crossbred dairy production system in India.  Genet Sel Evol. 53, 73

Bourdon C, Boussaha M, Bardou P, Sanchez MP, Le Guillou S, Tribout T, Larroque H, Boichard D, Rupp R, Le Provost F, Tosser-Klopp G. 2021. In silico identification of variations in microRNAs with a potential impact on dairy traits using whole ruminant genome SNP datasets. Scient Report. 11 

Mollandin F, Rau A, Croiseau P. 2021. An evaluation of the predictive and mapping power of the BayesR model for genomic prediction. G3. jkab225

Rostellato R, Promp J, Leclerc H, Mattalia S, Friggens NC, Boichard D, Ducrocq V. 2021. Influence of production, reproduction, morphology and health traits on true and functional longevity in French dairy cattle. J Dairy Sci


Allais-Bonnet A., Hintermann A., Deloche M.C., Cornette R., Bardou P., Naval-Sanchez M., Pinton A., Haruda A., Grohs C., Zakany J., Bigi D., Medugorac I., Putelat O., Greyvenstein O., Hadfield T., Ben Jemaa S., Bunevski G., Menzi F., Hirter N., Paris J.M., Hedges J., Palhiere I., Rupp R., Lenstra J.A., Gidney L., Lesur J., Schafberg R., Stache M., Wandhammer M.D., Arbogast R.M., Guintard C., Blin A., Boukadiri A., Rivière J., Esquerré D., Donnadieu C., Danchin-Burge C., Reich C.M., Riley D.G., van Marle-Koster E., Cockett N., Hayes B.J., Drögemüller C., Kijas J., Pailhoux E., Tosser-Klopp G., Duboule D., Capitan A. 2021. Analysis of Polycerate Mutants Reveals the Evolutionary Co-option of HOXD1 for Horn Patterning in Bovidae. Molecular Biology and Evolution, 38, 2260-2272

Ben Abdelkrim A, Puillet L, Gomes P, Martin O. 2021. Lactation curve model with explicit representation of perturbations as a phenotyping tool for dairy livestock precision farming. Animal. 15, 100074

Ben Abdelkrim A, Tribout T, Martin O, Boichard D, Ducrocq V, Friggens NC. 2021. Exploring simultaneous perturbation profiles in milk yield and body weight reveals a diversity of animal responses and new opportunities to identify resilience proxies. J Dairy Sci. 104, 459-470

Ben Braiek M, Fabre S, Hoze C, Astruc JM, Moreno-Romieux C. 2021. Identification of homozygous haplotypes carrying putative recessive lethal mutations compromising fertility traits in French Lacaune dairy sheep. Genet Sel Evol. 53, 41.

Ben-Jemaa S, Senczuk G, Ciani E, Ciampolini R, Catillo G, Boussaha M, Pilla F, Portolano B, Mastrangelo S. 2021. Genome-wide analysis reveals selection signatures involved in meat traits and local adaptation in semi-feral Maremmana cattle. Front Genet. 12, 675569

Bérodier M, Berg P, Meuwissen T, Boichard D, Brochard M,  Ducrocq V. 2021. Improved dairy cattle mating plans at herd level using genomic information. Animal. 15, 100016.

Cuyabano BCD, Rovere G, Lim D, Kim TH, Lee HK, Lee SH, Gondro C. 2021. GPS Coordinates for Modelling Correlated Herd Effects in Genomic Prediction Models Applied to Hanwoo Beef Cattle. Animals. 11, 2050

El Hou A, Rocha D, Venot E, Blanquet V, Philippe R. 2021. Long-range linkage disequilibrium in French beef cattle breeds. Genet Sel Evol, 53, 63

Escouflaire C, Capitan A. 2021. Analysis of pedigree data and whole-genome sequences in 12 cattle breeds reveals extremely low within-breed Y-chromosome diversity. Anim Genet. 52, 725-729

Guarnido-Lopez P, Ortigues-Marty I, Taussat S, Fossaert C, Renand G, Cantalapiedra-Hijar G. 2021. Plasma proteins delta N-15 vs plasma urea as candidate biomarkers of between-animal variations of feed efficiency in beef cattle: Phenotypic and genetic evaluation. Animal. 15, 100318

Femenia M, Charles M, Boulling A, Rocha D. 2021. Identification and characterisation of mitochondrial sequences integrated into the ovine nuclear genome. Anim Genet. 52, 556-559

Floriot S, Duchesne D, Grohs C, Hozé C, Deloche MC, Fayolle G, Vilotte JL, Boichard D, Fritz S,  Boussaha M. 2021. A missense mutation in the FZD7 gene is associated with dilution of the red areas of the coat in Montbéliarde cattle. Anim Genet. 52, 351-355.

Lefebvre R, Larroque H, Barbey S, Gallard Y, Colleau JJ, Lainé AL, Boichard D, Martin D. 2021. Genome-wide association study for age at puberty and resumption of cyclicity in a crossbred dairy cattle population. J. Dairy Sci. 104, 5794-5804

Martin P, Ducrocq V, Faverdin P, Friggens NC. 2021. Invited Review: Disentangling residual feed intake—Insights and approaches to make it more fit for purpose in the modern context. J Dairy Sci. 104, 6329-6342

Martin P, Ducrocq V, Gordo DGM, Friggens NC. 2021. A new method to estimate residual feed intake in dairy cattle using time series data. Animal, 15, 100101

Martin P, Vinet A, Denis C, Grohs C, Chanteloup L, Dozias D, Maupetit D, Sapa J, Renand G, Blanc F. 2021. Determination of immunoglobulin concentrations and genetic parameters for colostrum and calf serum in Charolais animals. J Dairy Sci. 104, 3240–3249

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

Puillet L, Ducrocq V, Friggens NC, Amer PR. 2021. Exploring underlying drivers of genotype by environment interactions in feed efficiency traits for dairy cattle with a mechanistic model involving energy acquisition and allocation. J Dairy Sci. 24: 5805-5816

Ramírez‑Ayala LC, Rocha D, Ramos‑Onsins SE, Leno‑Colorado J, Charles M, Bouchez O, Rodríguez‑Valera 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

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

Vinet A, Bouyer C, Forestier L, Oulmouden A, Blanquet V, Picard B, Cassar-Malek I, Bonnet M, Rocha D, Renand G. 2021. The Blonde d’Aquitaine T3811>G3811 mutation in the myostatin gene: association with growth, carcass, and muscle phenotypes in veal calves. J Anim Sci. 99, skab039.


Arnal M, Larroque H, Leclerc H, Ducrocq V, Robert-Granié C. 2020. Estimation of genetic parameters for dairy traits and somatic cell score in the first 3 parities using a random regression test-day model in French Alpine goats. J Dairy Sci. 103, 4517-4531

Ben‑Jemaa S, Mastrangelo S, Lee SH, Lee JH, Boussaha M. 2020. Genome‑wide scan for selection signatures reveals novel insights into the adaptive capacity in local North African cattle. Sci Rep. 10, 19466

Bhave K, Koilpillai TPJ, Ragothaman V, Sontakke S, Josh G, Ducrocq V. 2020. Semen production and semen quality of indigenous buffalo breeds under hot semiarid climatic conditions in India. Trop Anim Health Prod. 52, 2529-2539

Bidanel JP,  Silalahi P, Tribout T, Canario L, Ducos A, Garreau H, Gilbert H, Larzul C, Milan D, Riquet J, Schwob S, Mercat MJ, Hassenfratz C, Bouquet A, Bazin C, Bidanel J. 2020. Cinquante années d’amélioration génétique du porc en France : bilan et perspectives. INRAE Prod Anim. 33, 1-16

Boichard D. 2019. Development of dairy breeding programmes. Book chapter. Advances in Breeding of Dairy Cattle, published by Burleigh Dodds Science Publishing Limited. chapter 23, 603-618

Cantalapiedra-Hijar G, Guarnido P, Schiphorst AM, Robins RJ, Renand G, Ortigues-Marty I. 2020. Natural N-15 abundance in specific amino acids indicates associations between transamination rates and residual feed intake in beef cattle. J Anim Sci. 98, skaa171.

Cantalapiedra-Hijar G., Faverdin P., Friggens N.C., Martin P. 2020. Efficience Alimentaire : comment mieux la comprendre et en faire un élément de durabilité de l’élevage. INRAE Prod. Anim. 33, 235-248.

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

El Jabri M, Trossat P, Wolf V, Beuvier E, Rolet-Répécaud O, Gavoye S, Gaüzère Y, Belysheva O, Gaudillière N, Notz E, Grosperrin P, Laithier C, Delacroix-Buchet A. 2020. Mid-infrared spectrometry prediction of the cheese-making properties of raw Montbéliarde milks from herds and cheese dairy vats used for the production of Protected Designation of Origin and Protected Geographical Indication cheeses in Franche-Comté. J Dairy Sci. 103: 5992-6002

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

Gehrke LJ, Capitan A, Scheper C, König S, Upadhyay M, Heidrich K, Russ I, Seichter D, Tetens J, Medugorac I,Thaller G. 2020. Are scurs in heterozygous polled (Pp) cattle a complex quantitative trait? Genet Sel Evol. 52, 6

Gehrke LJ, Upadhyay M, Heidrich K, Kunz E, Klaus‑Halla D, Weber F, Zerbe H, Seichter D, Graf A, Krebs S, Blum H, Capitan A, Thaller G, Medugorac I. 14, M. 2020. A de novo frameshift mutation in ZEB2 causes polledness, abnormal skull shape, small body stature and subfertility in Fleckvieh cattle. Sci Rep. 10, 17032

Godia M, Ramayo-Caldas Y, Zingaretti LM, Darwich L, Lopez S, Rodriguez-Gil JE, Yeste M, Sanchez A, Clop A.    2020. A pilot RNA-seq study in 40 pietrain ejaculates to characterize the porcine sperm microbiome. Theriogenology. 157, 525-533

Hozé C, Escouflaire C, Mesbah-Uddin M, Barbat A, Boussaha M, Deloche MC, Boichard D, Fritz S, Capitan A. 2020. Short Communication: A splice site mutation in CENPU is associated with recessive embryonic lethality in Holstein cattle. J Dairy Sci. 103, 607-612

Legarra A, Aguilar I, Colleau JJ. 2020. Methods to compute genomic inbreeding for ungenotyped individuals. J Dairy Sci. 103, 3363–3367

Li JH, Zhong HZ,  Ramayo-Caldas Y, Terrapon N, Lombard V, Potocki-Veronese G, Estelle-Fabrellas J, Popova M, Yang ZY, Zhang H, Li F, Tang SM, Yang FM, Chen W, Chen B, Li JY,Guo J,  Martin C,Maguin E, Xu X. 2020. A catalog of microbial genes from the bovine rumen unveils a specialized and diverse biomass-degrading environment. GigaScience. 9, giaa057

Lin JH, Masson E, Boulling A, Hayden M, Cooper DN, Férec C, Liao Z, Chen JM. 2020. 5 ' splice site GC > GT and GT > GC variants differ markedly in terms of their functionality and pathogenicity. Hum Mut. 41, 1358-1364.

Liu A, Lund MS, Boichard D, Mao X, Karaman E, Fritz S, Pedersen Aamand G, Wang Y, Su G. 2020. Imputation for sequencing variants preselected to a customized low-density chip. Sci Rep. 10, 9524

Liu A, Lund MS, Boichard D, Karaman E, Fritz S, Aamand GP, Nielsen US, Wang Y, Su G. 2020. Improvement of genomic prediction by additional single nucleotide polymorphisms selected from whole genome sequencing data. Heredity. 124, 37-49

Liu A, Lund MS, Boichard D, Karaman E, Guldbrandtsen B, Fritz S, Aamand GP, Nielsen US, Sahana G, Wang Y, Su G. 2020. Weighted single-step genomic best linear unbiased prediction integrating the variants selected from sequencing data by association and bioinformatics analyses. Genet sel Evol. 52-48

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. 51, 815-819

Mastrangelo S, Ben Jemaa S, Ciani E, Sottile G, Moscarelli A, Boussaha M, Montedoro M, Pilla F, Cassandro M.2020. Genome-wide detection of signatures of selection in three Valdostana cattle populations. J Anim Breed Genet. 137, 609-621.

Nayeri S, Schenkel FS, Martin P, Fleming A, Jamrozik J, Malchiodi F, Brito LF, Baes CF, Sargolzaei M, Miglior F. 2020. Estimation of genetic parameters for mid-infrared-predicted lactoferrin and milk fat globule size in Holstein cattle. J Dairy Dci. 103, 2487–2497

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. 2020. Identification of rumen microbial biomarkers linked to methane emission in Holstein dairy cows. J Anim Breed Genet. 137, 49-59

Rodríguez‐Valera Y, Rocha D, Naves M, Renand G, Pérez‐Pineda E, Ramayo‐Caldas Y, Ramos‐Onsins SE. 2020. The identification of runs of homozygosity gives a focus on the genetic diversity and adaptation of the “Charolais de Cuba” cattle. Animals (Basel). 10, 2233 

Sanchez MP, Fritz S, Patry C, Delacroix-Buchet A, Boichard D. 2020. Milk protein variant and haplotype frequencies estimated from genotypes of more than one million bulls and cows of twelve French cattle breeds. J Dairy Sci. 103, 9124-9141.

Sanchez MP, Guatteo R, Davergne A, Saout J, Grohs C, Deloche MC, Taussat S, Fritz S, Boussaha M, Blanquefort P, Delafosse A, Joly A, Schibler L, Fourichon C, Boichard D. 2020. Identification of the ABCC4, IER3, and CBFA2T2 candidate genes for resistance to paratuberculosis from sequence‑based GWAS in Holstein and Normande dairy cattle. Genet Sel Evol. 52,14.

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

Taussat S, Boussaha M, Ramayo‑Caldas Y, Martin P, Venot E, Cantalapiedra‑Hijar G, Hozé C, Fritz S, Renand G. 2020. Gene networks for three feed efficiency criteria reveal shared and specific biological processes. Genet Sel Evol. 52, 67

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

Tribout T, Croiseau P, Lefebvre R, Barbat A, Boussaha M, Fritz S, Boichard D, Hoze C, Sanchez MP. Confirmed effects of candidate variants for milk production, udder health, and udder morphology in dairy cattle. Genet Sel Evol. 52, 55

Van Den Berg I, Xiang R, Jenko J, Pausch H, Boussaha M, Tribout T, Gjuvsland AB, Boichard D, Nordbø Ø., Sanchez MP, Goddard ME. 2020. Large scale multi breed meta-analysis for fat and protein percentage using imputed sequence variant genotypes in 94,321 cattle from eight dairy breeds. Genet Sel Evol. 52, 37

Wu X, Mesbah-Uddin M, Guldbrandtsen B, Lund MS, Sahana G. 2020. Novel haplotypes responsible for prenatal death in Nordic Red and Danish Jersey cattle. J Dairy Sci. 103, 4570-4578

Zened A, Forano E, Delbes C, Verdier-Metz I, Morgavi D, Popova M, Ramayo-Caldas Y, Bergonier D, Meynadier A, Marie-Etancelin C. 2020. Les microbiotes des ruminants : état des lieux de la recherche et impacts des microbiotes sur les performances et la santé des animaux. INRAE Prod Anim. 33, 249-260

Zhang J, Kadri N, Mullaart E, Spelman R, Fritz S, Boichard D, Charlier C, Georges M, Druet T. 2020. Genetic architecture of individual variation in recombination rate on the X-chromosome in cattle. Heredity, 125:304–316

Zingaretti LM, Renand G, Morgavi DP, Ramayo-Caldas Y. 2020. Link-HD: a versatile framework to explore and integrate heterogeneous microbial communities. Bioinformatics. 36: 2298–2299.


Arnal, M, Larroque H, Leclerc H, Ducrocq V, Robert-Granie C. 2019. Genetic parameters for first lactation dairy traits in the Alpine and Saanen goat breeds using a random regression test-day model. Genet Sel Evol. 51:43

Ben Jemaa S, Thamri N, Mnara S, Rebours E, Rocha D, Boussaha M. 2019. Linkage disequilibrium and past effective population size in native Tunisian cattle. Genet Mol Biol. 42:52-61

Ben Jemaa S, Kdidi S, Gdura AM, Dayhum AS, Eldaghayes IM, Boussaha M, Rebours E, Yahyaoui EM. 2019. Inferring the population structure of the Maghreb sheep breeds using a medium-density SNP chip. Anim Genet. 50:526-533

Bérodier M, Brochard M, Boichard D, Dezetter C, Bareille N, Ducrocq V. 2019. Use of sexed semen and female genotyping affects genetic and economic outcomes of Montbéliarde dairy herds depending on the farming system considered. J Dairy Sci. 102:10073-10087

Croué I, Michenet A, Leclerc H, Ducrocq V. 2019. Genomic analysis of claw lesions in Holstein cows: Opportunities for genomic selection, quantitative trait locus detection, and gene identification. J Dairy Sci. 102:6306–6318

De La Torre Capitan A, Andueza Urra JD, Renand G, Baumont R, Cantalapiedra Hijar G, Noziere P. 2019. Digestibility contributes to between-animal variation in feed efficiency in beef cows. Animal, 13:2821–2829

Dezetter C, Boichard D, Bareille N, Grimard B, Le Mezec P, Ducrocq V. 2019. Dairy crossbreeding: Pros and cons for Holsteindairy systems. INRA Prod Anim. 32, 359-378

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

El Jabri M., Sanchez M.P., Trossat P., Laithier C., Wolf V., Grosperrin P., Beuvier E., Rolet-Répécaud O., Gavoye S., Gauzere Y., Belysheva O., Notz E., Boichard D., Delacroix-Buchet A. 2019. Comparison of Bayesian and PLS regression methods for mid-infrared prediction of cheese-making properties in Montbéliarde cows. J Dairy Sci.102:6943–6958

Escouflaire E, Rebours E, Charles M, Orellana S, Cano M, Rivière J, Grohs C, Hayes H, Capitan A. 2019. Α de novo 3.8-Mb inversion affecting the EDA and XIST genes in a heterozygous female calf with generalized hypohidrotic ectodermal dysplasia. BMC Genomics. 20:715

Guillocheau GM, El Hou A, Meersseman C, Esquerré D, Rebours E, Letaief R, Simao M, Hypolite N, Bourneuf E, Bruneau N, Vaiman A, Vander Jagt CJ, Chamberlain  AJ, Rocha D. 2019. Survey of allele specific expression in bovine muscle. Sci Rep. 9:4297

Martin P, Taussat S, Vinet A, Krauss D, Maupetit D, Renand G. 2019. Genetic parameters and genome-wide association study regarding feed efficiency and slaughter traits in Charolais cows. J Anim Sci. 97:3684-3698

Martin P, Baes C, Houlahan K, Richardson CM, Jamrozik J, Miglior F. 2019. Genetic correlations among selected traits in Canadian Holsteins. Can J Anim Sci. 99:693-704

Mesbah-Uddin M, Guldbrandtsen B, Lund MS, Boichard D, Sahana G. 2019. Joint imputation of whole-genome sequence variants and large chromosomal deletions in cattle. J Dairy Sci. 102:11193-11206 

Mesbah-Uddin M, Hoze C, Michot P, Barbat A, Lefebvre R, Boussaha M, Sahana G, Fritz S, Boichard D, Capitan A. 2019. A missense mutation (p.Tyr452Cys) in the CAD gene compromises reproductive success in French Normande cattle. J Dairy Sci, 102:6340-6356

Navarro-Gonzalez N, Fourichon C, Blanquefort P, Delafosse A, Joly A, Ngwa-Mbot D, Biet F, Boichard D, Schibler L, Journaux L, Meens E, Guatteo R. 2019. Longitudinal Study of Mycobacterium avium subsp paratuberculosis Shedding Patterns and Concurrent Serological Patterns in Naturally Infected Dairy Cattle. J Dairy Sci. 102:9117-9137

Raliou M, Dembélé D, Düvel A, Bolifraud P, Aubert J, Mary-Huard T, Rocha D, Piumi F, Mockly S, Heppelmann M, Dieuzy-Labaye I, Zieger P, G E Smith D, Schuberth HJ, Sheldon IM, Sandra O. 2019. Subclinical endometritis in dairy cattle is associated with distinct mRNA expression patterns in blood and endometrium. PLoS One. 14:e0220244

Renand G, Vinet A, Decruyenaere V, Maupetit D, Dozias D. 2019. Methane and carbon dioxide emission of beef heifers in relation with growth and feed efficiency. Animals. 9, 1136

Sanchez M.P., Ramayo-Caldas Y., Wolf V., Laithier C., El Jabri M., Michenet A., Boussaha M., Taussat S., Fritz S., Delacroix-Buchet A., Brochard M., Boichard D. 2019. Sequence-based GWAS, network and pathway analyses reveal genes co-associated with milk cheese making properties and milk composition in Montbéliarde cows. Genet Sel Evol, 51:34.

Sanchez MP, Wolf V,Laithier C, El Jabri M, Beuvier E, Rolet-Répécaud O, GaudillièreN, Minéry S, Ramayo-Caldas Y, Tribout T, Michenet A, Boussaha M, Taussat S, Fritz S, Delacroix-Buchet A, Grosperrin P, Brochard M, Boichard D. 2019. Genetic analysis of milk cheese-making traits predicted from mid-infrared spectra in Montbéliarde cows. INRA Prod Anim. 32, 379-398

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

Taussat S, Saintilan R, Krauss D, Maupetit D, Fouilloux MN, Renand G. 2019. Relationship between feed efficiency and slaughter traits of French Charolais bulls. J Anim Sci. 97:2308-2319

Tesniere G, Ducrocq V, Boxenbaum E, Labatut J. 2019. National organizations and management tools for genetic improvement of dairy cattle: a comparison between France, Ireland and The Netherlands. Inra Prod Anim. 32:37-49

Wu XP, Mesbah-Uddin M, Guldbrandtsen B, Lund MS, Sahana G. 2019. Haplotypes responsible for early embryonic lethality detected in Nordic Holsteins. J Dairy Sci. 102:11116-11123


Ben Jemaa S, Rahal O, Gaouar SBS, Mastrangelo S, Boussaha M, Ciani E. 2018. Genomic characterization of Algerian Guelmoise cattle and their genetic relationship with other North African populations inferred from SNP genotyping arrays. Livest Sci. 217, 19-25.

Boichard D, Mattalia S, Fritz S. 2018. La sélection dans l’espèce bovine et ses perspectives. Bull Acad Vet. 170, 215-220.

Bouwman AC, Daetwyler HD, Chamberlain AJ, Hurtado Ponce C, Sargolzaei M, Schenkel FS, Sahana G, Govignon-Gion A, Boitard S, Dolezal M, Pausch H, Brøndum RF, Bowman PJ, Thomsen B, Guldbrandtsen B, Lund MS, Servin B, Garrick DJ, Reecy J, Vilkki J, Bagnato A, Wang M, Hoff JL, Schnabel RD, Taylor JF, Vinkhuyzen AAE, Panitz F, Bendixen C, Holm LE, Gredler B, Hozé C, Boussaha M, Sanchez MP, Rocha D, Capitan A, Tribout T, Barbat A, Croiseau P, Drögemüller C, Jagannathan V, Vander Jagt C, Crowley JJ, Intergenomics Consortium, Bieber A, Purfield DC, Berry DP, Emmerling R, Götz KU, Van Tassell CP, Fries R, Stothard P, Veerkamp RF, Boichard D, Goddard ME, Hayes BJ.  2018. Meta-analysis of genome wide association studies for the stature of cattle reveals common genes that regulate size in mammals. Nat Genet. 50, 362-367.

Charton C, Guinard-Flament J, Lefevre R, Barbey S, Gallard Y, Boichard D, Larroque H. 2018. Genetic determinism of milk production traits in response to a three-week once-daily milking period in crossbred Holstein × Normande dairy cows. J Dairy Sci. 101, 2235-2247.

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.

Crespo-Piazuelo D, Estelle J, Revilla M Criado-Mesas L Ramayo-Caldas Y, Ovilo C, Fernandez AI, Ballester M, Folch JM. 2018. Characterization of bacterial microbiota compositions along the intestinal tract in pigs and their interactions and functions. Sci Rep. 8, 12727

Duchesne A, Vaiman A, Frah M, Floriot S, Rodriguez S, Desmazieres A, Fritz S, Beauvallet C, Albaric O, Venot E, Bertaud M, Guatteo R, Esquerre D, Brice A, Vilotte JL, Darios F, Stevanin G, Boichard D, El Hachimi KH. 2018. Progressive ataxia of Charolais cattle highlights a role of KIF1C in sustainable myelination. Plos Genet. 14, e1007550.

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.

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.

Fritz S, Hoze C, Rebours E, Barbat A, Bizard M, Chamberlain A, Escouflaire C, Vander Jagt C, Boussaha M, Grohs C, Allais-Bonnet A, Philippe M, Vallee A, Amigues Y, Hayes BJ, Boichard D, Capitan A. 2018. An initiator codon mutation in SDE2 causes recessive embryonic lethality in Holstein cattle. J Dairy Sci. 101, 6220-6231.

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

Imbayarwo-Chikosi VE, Ducrocq V, Banga CB, Halimani TE, Van Wyk JB, Maiwashe A, Dzama K. 2018. Impact of conformation traits on functional longevity in South African Holstein cattle. Anim Prod Sci. 58, 481-488.

Kern EL, Cobuci JA, Costa CN, Ducrocq V. 2018. Phenotypic relationships between type traits and length of productive life using a piecewise Weibull proportional hazard mode. Sci Agr. 75, 470-478.

Marete AG, Sahana G, Fritz S, Lefebvre R, Barbat-Leterrier A, Lund MS, Guldbrandtsen B, Boichard D. 2018. Genome-wide association study for milking speed in French Holstein cows. J Dairy Sci. 101, 6205-6219.
Marete AG, Boichard D, Lund MS, Ramayo-Caldas Y. 2018. A system-based analysis of the genetic determinism of udder conformation and health traits across three French dairy breeds. PLoS One. 7, e0199931.

Marete A, Guldbrandtsen B, 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. Frontiers in Genetics, 9, 522.

Mesbah-Uddin M, Guldbrandtsen B, Iso-Touru T, Vilkki J,  De Koning DJ, Boichard D, Lund MS, Sahana G. 2018. Genome-widemapping of large deletions and their population-genetic properties in dairy cattle. DNA Res. 25, 49-59.

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

Pegolo S, Mach N, Ramayo Caldas Y, Schiavon S, Bittante G, Cecchinato A. 2018. Integration of GWAS, pathway and network analyses reveals novel mechanistic insights into the synthesis of milk proteins in dairy cows. Sci Rep. 8, 566.

Perrier JP, Sellem E, Prézelin A, Gasselin M, Jouneau L, Piumi F, Al Adhami H, Weber M, Fritz S, Boichard D, Le Danvic C, Schibler L, Jammes H, Kiefer H. 2018. A multi-scale analysis of bull sperm methylome revealed both species peculiarities and conserved tissue-specific features. BMC Genomics. 19, 404.

Rainard P, Foucras G, Boichard D, Rupp R. 2018. Invited review: Low milk somatic cell count and susceptibility to mastitis. J Dairy Sci. 101, 6703-6714.

Rainard P, Foucras G, Boichard D, Rupp R. 2018. Low somatic cell count and susceptibility to mastitis in dairy ruminants. Inra Prod Anim. 31, 365-375   

Rodriguez-Valera Y, Renand G, Naves M, Fonseca-Jiménez Y, Moreno-Probance TI, Ramos-Onsins S, Rocha D, Ramayo-Caldas. Genetic diversity and selection signatures of the beef ‘Charolais de Cuba’ breed. Sci Rep. 8, 11005.

Sanchez M.P., El Jabri M., Minery S., Wolf V., Beuvier E., Laithier C., Delacroix-Buchet A., Brochard M., Boichard D. 2018. Genetic parameters for cheese-making properties and milk composition predicted from mid-infrared spectra in a large dataset of Montbéliarde cows. J Dairy Sci, 101, 10048–10061.

Sanchez M.P., Wolf V., El Jabri M., Beuvier E., Rolet-Repecaud O., Gauzere Y., Minery S., Brochard M., Michenet A., Taussat S., Barbat-Leterrier A., Delacroix-Buchet A., Laithier C., Fritz S., Boichard D. 2018. Short-communication: Confirmation of candidate causative variants on milk composition and cheese-making properties in Montbéliarde cows. J Dairy Sci, 101, 10076–10081.

Teissier M, Sanchez MP, Boussaha M, Barbat A, Hoze C, Robert-Granie C, Croiseau P. 2018. Use of meta-analyses and joint analyses to select variants in whole genome sequences for genomic evaluation: An application in milk production of French dairy cattle breeds. J Dairy Sci. 101, 3126-3139. 

Vinet A, Leclerc H, Marquis F, Phocas F. 2018. Genetic analysis of calf health in Charolais beef cattle. J. Anim. Sci., 96:1246–1258.


Bédère N, Disenhaus C, Ducrocq V, Leurent-Colette S, Delaby L. 2017. Ability of dairy cows to be inseminated according to breed and genetic merit for production traits under contrasting pasture-based feeding systems. Animal. 11, 826-835.

Bedere N, Disenhaus C, Ducrocq V, Leurent-Colette S, Delaby L. 2017. Ability of dairy cows to ensure pregnancy according to breed and genetic merit for production traits under contrasted pasture based systems. J Dairy Sci. 100, 2812-2827.

Bourneuf E, Otz P, Pausch H, Jagannathan V, Michot P,  Grohs C, Piton G, Ammermüller S, Deloche MC, Fritz S, Leclerc H, Péchoux C, Boukadiri A, Hozé C, Saintilan R, Créchet F,  Mosca M, Segelke D, Guillaume F, Bouet S, Baur A, Vasilescu A, Genestout L, Thomas A, Allais-Bonnet A, Rocha D, Colle MA, Klopp C,  Esquerré D, Wurmser C, Flisikowski K, Schwarzenbacher H, Burgstaller  J, Brügmann M, Dietschi E, Rudolph N, Fayolle G, Danchin-Burge C,  Schibler L, Bed’Hom B, Hayes BJ, Daetwyler HD, Fries R, Boichard  D, Pin D, Drögemüller C, Capitan A.  2017. Rapid discovery of de novo deleterious mutations in cattle enhances the value of livestock as model specie. Sci Rep. 7, 11466.

Chung NC, Szyda J, Frąszczak M, 1000 Bull Genomes Project. 2017. Population structure analysis of bull genomes of European and Western ancestry. Sci Rep. 13, 40688.

Croué I, Ducrocq V. 2017. Single step and genomic evaluation of young bull carcass traits in dual-purpose cattle. J Anim Breed Genet. 134, 300–307.

Croue I, Fouilloux MN, Saintilan R, Ducrocq V. 2017. Young bull carcass traits in dual-purpose cattle: genetic parameters and genetic correlations with veal calf, type and production traits. Animal. 11, 929–937. 

Croué I, Fikse F, Johansson K, Carlén E, Thomas G, Leclerc H, Ducrocq V. 2017. Genetic evaluation of claw health traits accounting for potential preselection of cows to be trimmed. J Dairy Sci. 100, 8197-8204.

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.

Fang ZH, BovenhuisH, Delacroix-Buchet A, Miranda G, Boichard D, Visker MHPW, Martin P. 2017. Genetic and nongenetic factors contributing to differences in αS-casein phosphorylation isoforms and other major milk proteins. J Dairy Sci. 100, 5564-5577.

Garreau H, Larzul C, Tudela F, Ruesche J, Ducrocq V, Fortun-Lamothe L. 2017. Energy balance and body reserves in rabbit females selected for longevity. World Rabbit Sci. 25, 205-213.

Griffon L, Boulesteix P, Delpeuch A, Govignon-Gion A, Guerrier J, Leudet O, Miller S, Saintilan R, Rémot E, Tribout T. 2017. La sélection génétique des races bovines allaitantes en France : un dispositif et des outils innovants au service des filières viande. INRA Prod Anim. 30, 107-124.        

Imbayarwo Chikosi V, Ducrocq V, Banga C, Halimani, T, Van Wyk J, Maiwashe A, Dzama K. 2017. Estimation of genetic parameters for functional longevity in the South African Holstein cattle using a piecewise Weibull proportional hazards models. J Anim Breed Genet. 134, 364-372.

Jonas D, Ducrocq V, Fritz S, Baur A, Sanchez MP, Croiseau MP. 2017. Genomic evaluation of regional dairy cattle breeds in single-breed and multi-breed contexts. J Anim Breed Genet. 134, 3-13.

Jonas D, Ducrocq V, Croiseau P. 2017. The combined use of LD-based haploblock and allele frequency-based haplotype selection method enhances genomic evaluation accuracy in dairy cattle. J Dairy Sci. 100, 2905-2908.

Letaief R, Rebours E, Grohs C, Meersseman C, Fritz S, Trouilh L, Esquerré D, Barbieri J, Klopp C, Philippe R, Blanquet V, Boichard D, Rocha D, Boussaha M. 2017. Identification of copy number variation in French dairy and beef breeds using next-generation sequencing. Genet Sel Evol. 49, 77.

Medugorac I, Graf A, Grohs C, Rothammer S, Zagdsuren Y, Gladyr E, Zinovieva N, Barbieri J, Seichter D, Russ I, Eggen A, Hellenthal G, Brem G, Blum H, Krebs S, Capitan A. 2017. Whole-genome analysis of introgressive hybridization and characterization of the bovine legacy of Mongolian yaks. Nat Genet. 49, 470-475.

Meersseman C, Letaief R, Léjard V, Rebours E, Guillocheau G, Esquerré D, Djari A, Chamberlain A, Vander Jagt C, Klopp C, Boussaha M, Renand G, Maftah A, Petit D, Rocha D. 2017. Genetic variability of the activity of bidirectional promoters: a pilot study in bovine muscle. DNA Res. 24, 221–233.

Michot P, Fritz S, Barbat A, Boussaha M, Deloche MC, Grohs C, Hoze C, Le Berre L, Le Bourhis D, Desnoes O, Salvetti P, Schibler L, Boichard D, Capitan A. 2017A missense mutation in PFAS (phosphoribosylformylglycinamidine synthase) is likely causal for embryonic lethality associated with the MH1 haplotype in Montbéliarde dairy cattle. J Dairy Sci. 100, 8176-8187.

Morales R, Phocas F, Solé M, Demyda-Peyrás S, Menendez-Buxadera A, Molina A. 2017. Breeding beef cattle for an extended productive life: evaluation of selection criteria in the Retinta breed as example. Livest Sci. 204, 115-121.

Morgenthaler C, Diribarne M, Capitan A, Legendre R, Saintilan R, Gilles M, Esquerré D, Juras R, Khanshour A, Schibler L, Cothran G. 2017. A missense variant in the coil1A domain of the keratin 25 gene is associated with the dominant curly hair coat trait (Crd) in horse. Genet Sel Evol.  49, 85.

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.

Sanchez MP, Ferrand M, Gelé M, Pourchet D, Miranda, G, Martin P, Brochard M, Boichard D. 2017. Genetic parameters for milk protein composition predicted using mid-infrared spectroscopy in the French Montbéliarde, Normande, and Holstein dairy cattle breeds. J Dairy Sci. 100, 6371-6375.

Sanchez MP, Govignon‑Gion A, Croiseau P, Fritz S, Hozé C, Miranda G, Martin P, Barbat‑Leterrier A, Letaïef R, Rocha D, Brochard M, Boussaha M, Boichard D. 2017. Within‑breed and Multi‑breed GWAS on imputed whole‑genome sequence variants reveal candidate mutations Affecting milk protein composition in dairy cattle. Genet Sel Evol.  49, 68.

Silalahi P, Tribout T,  Billon Y, Gogué J, Bidanel JP. 2017. Estimation of the effects of selection on French Large White sow and piglet performance during the suckling period. J Anim Sci. 95, 4333-4343.


Angulo L, Guyader-Joly C, Auclair S, Hennequet-Antier C, Papillier P Boussaha M, Fritz S, Hugot K, Moreews F, Ponsart C, Humblot P, Dalbies-Tran R. 2016. An integrated approach of bovine oocyte quality, from the phenotype to the genes. Reprod Fertil Dev. 28, 1276-1287.

Arbre M, Rochette Y, Guyader J,  Lascoux C, Gomez LM, Eugene M, Morgavi DP, Renand G, Doreau M, Martin C. 2016. Repeatability of enteric methane determinations from cattle using either the SF6 tracer technique or the GreenFeed system. Anim Prod Sci. 56, 238-243.

Bedere N, Disenhaus C, Ducrocq V, Leurent-Colette S, Delaby L. 2016. Ability of dairy cows to be inseminated according to breed and genetic merit for production traits under contrasting pasture-based feeding systems. Animal. 11, 826-835.

Bedere N, Delaby L, Ducrocq V, Leurent-Colette S, Disenhaus C. 2016. Toward improved postpartum cyclicity of primiparous dairy cows: Effects of genetic merit for production traits under contrasting feeding systems. J Dairy Sci. 99, 1266-1276.

Boichard D, Grohs C, Danchin-Burge C, Capitan A. Les anomalies génétiques : définition, origine, transmission et évolution, mode d’action. Inra Prod Anim. 29, 297-306.

Boichard D, Grohs C, Michot P, Danchin-Burge C, Capitan A, Genestout L, Barbier S, Fritz S. 2016. Prise en compte des anomalies génétiques en sélection : le cas des bovins. Inra Prod Anim. 29, 351-358.

Boichard D, Ducrocq V, Croiseau P, Fritz S. 2016. Genomic selection in domestic animals: Principles, applications and perspectives. CR Biol. 339, 274-277.

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, 433-450.

Boussaha M, Michot P, Letaief R, Hozé C, Fritz S, Grohs C, Esquerré D, Duchesne A, Philippe R, Blanquet V, Phocas F, Floriot S, Rocha D, Klopp C, Capitan A, Boichard D. 2016. Construction of a large collection of small genome variations in French dairy and beef breeds using whole-genome sequences. Genet Sel Evol. 48, 87.

Chapuis H, Pincent C, Colleau JJ. 2016. Optimizing selection with several constraints in poultry breeding. J Anim Breed Genet. 133, 3-12.

Duchesne A, Grohs C, Michot P, Bertaud M, Boichard D, Floriot S, Capitan A. 2016. Du phénotype à la mutation causale : le cas des anomalies récessives bovines. Inra Prod Anim. 29, 319-328  .

Fritz S, Michot P, Hoze C, Grohs C, Barbat-Leterrier A, Boussaha M, Boichard D, Capitan A. 2016. Anticiper l'émergence d'anomalies génétiques grâce aux données génomiques. Inra Prod Anim. 29, 339-350.

Gautier M, Moazami-Goudarzi K, Leveziel H, Grohs C, Rialle S, Kowalczyk R, Flori L. 2016. Deciphering the Wisent demographic and adaptive histories from individual whole-genome sequences. Mol Biol Evol. 33, 2801-2814.

Govignon-Gion A, Dassonneville R, Baloche G, Ducrocq V. 2016. Multiple trait genetic evaluation of clinical mastitis in three dairy cattle breeds. Animal. 10, 558-565.

Grohs C, Duchesne A, Floriot S, Deloche MC, Boichard D, Ducos A, Danchin-Burge C. 2016. L’Observatoire National des Anomalies Bovines, son action et ses résultats pour une aide efficace à la gestion des anomalies génétiques. Inra Prod Anim. 29, 307-318.

Jonas D, Ducrocq V, Fouilloux MN , Croiseau P. 2016. Alternative haplotype construction methods for genomic evaluation. J Dairy Sci. 99, 4537-4546.

Kadri NK, Harland C, Faux P, Cambisano N, Karim L, Coppieters W, Fritz S, Mullaart E, Baurain D, Boichard D, Spelman R, Charlier C, Georges M, Druet T. 2016. Coding and non-coding variants in HFM1, MLH3, MSH4, MSH5, RNF212 and RNF212B affect recombination rate in cattle. Genome Res. 26:1323–1332.

Kern EL, Cobuci JA, Costa CN, Ducrocq V. 2016. Survival analysis of productive life in Brazilian holstein using a piecewise Weibull proportional hazard model. Livest Sci. 185, 89-96.

Leroy G, Besbes,B, Boettcher P, Hoffmann I, Capitan A, Baumung R. 2016. Rare phenotypes in domestic animals: unique resources for multiple applications. Anim Genet. 47, 141-153.

Li X, Lund MS, Zhang Q, Costa, CN, Ducrocq V. 2016. Short communication: Improving accuracy of predicting breeding values in Brazilian Holstein population by adding data from Nordic and French Holstein populations. J Dairy Sci. 99, 4574-4579.

Lund MS, Van Den Berg I, Ma P, Brondum RF, Su G. 2016. Review: How to improve genomic predictions in small dairy cattle populations. Animal. 10, 1042-1049.

Michenet A, Saintilan R, Venot E,  Phocas F. 2016. Insights into the genetic variation of maternal behavior and suckling performance of continental beef cows. Genet Sel Evol. 48, 45.

Michenet A, Barbat M, Saintilan R, Venot E,  Phocas F. 2016. Detection of quantitative trait loci for maternal traits using high-density genotypes of Blonde d’Aquitaine beef cattle. BMC Genet. 17, 88.

Michot P, Chahory S, Marete A, Grohs C, Dagios D, Donzel E, Aboukadiri A, Deloche MC, Allais-Bonnet A, Chambrial M, Barbey S, Genestout L, Boussaha M, Danchin-Burge C, Fritz S, Boichard D, Capitan A. 2016. A reverse genetic approach identifies an ancestral frameshift mutation in RP1 causing recessive progressive retinal degeneration in European cattle breeds. Genet Sel Evol. 48, 56.

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. 10, 1749-1759.

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. 10, 1760-1769.

Ramayo-Caldas Y, Renand G, Ballester M, Saintilan R, Rocha D. 2016. Multi-breed and multi-trait co-association analysis of meat tenderness and other meat quality traits in three French beef cattle breeds. Genet Sel Evol. 48, 37.

Renand G, Maupetit D. 2016. Assessing individual differences in enteric methane emission among beef heifers using the GreenFeed Emission Monitoring system: effect of the length of testing period on precision. Anim Prod Sci. 56, 218-223.

Sanchez MP, Govignon-Gion A,  Ferrand M,  Gelé M, Pourchet D, Amigues Y, Fritz S, Boussaha M, Capitan A, Rocha D, Miranda G, Martin P, Brochard M, Boichard D. 2016. Whole-genome scan to detect quantitative trait loci associated with milk protein composition in 3 French dairy cattle breeds. J Dairy Sci. 99, 8203-8215.

Silalahi P, Tribout T,  Prunier A, Billon Y, Gogue J, Bidanel JP. 2016. Estimation of the effects of selection on French Large White reproductive performance using frozen semen. J Anim Sci. 94, 3655-3662.

Vanbergue E1 Peyraud JL, Guinard-Flament J, Charton C, Barbey S, Lefebvre R, Gallard Y, Hurtaud C. 2016. Effects of DGAT1 K232A polymorphism and milking frequency on milk composition and spontaneous lipolysis in dairy cows. J Dairy Sci. 99, 5739-5749.

Van den Berg I, Boichard D, Guldbrandtsen B, Lund MS. 2016. Using sequence variants in linkage disequilibrium with causative mutations to improve across breed prediction in dairy cattle: A simulation study. G3 (Bethesda). 9, 2553-2561.

Van Den Berg I, Boichard D, Lund MS. 2016. Comparing power and precision of within and multi breed genome wide association studies of production traits using whole genome sequence data for five French and Danish dairy cattle breeds. J Dairy Sci. 99, 8932-8945.

Van den Berg I, Boichard D, Lund MS. 2016. Sequence variants selected from a multibreed GWAS can improve the reliability of genomic predictions in dairy cattle. Genet Sel Evol. 48, 83.

Van Pelt ML, Ducrocq V, de Jong G, Calus MPL, Veerkamp RF. 2016. Genetic changes of survival traits over the past 25 yr in Dutch dairy cattle. J Dairy Sci. 99, 9810-9819.


Allais S, Levéziel H, Hocquette JF, Rousset S, Denoyelle C, Journaux L, Renand G. 2014. Fine mapping of quantitative trait loci underlying sensory meat quality traits in three French beef cattle breeds. J Anim Sci. 92, 4329-4341.

Allais-Bonnet A., Grohs C., Medugorac I., Krebs S., Djari A., Graf A., Fritz S., Seichter D., Baur A., Bouet S., Wahlberg P., Esquerre D., Hoze C., Boussaha M., Weiss B., Thepot D., Venot E., Fouilloux M.N., Rossignol M.N., Van Marle-Köster E., Hreiðarsdottir G.E., Barbey S., Dozias D., Cobo E., Reverse P., Catros O., Marchand J.L., Soulas P., Roy P., Marquant-Leguienne B., Lebourhis D., Pannetier M., Phocas F., Klopp C.,  Rocha D., Fouchet M., Journaux L., Bernard-Capel C., Eggen A., Förster M., Gallard Y., Boichard D., Pailhoux E., Capitan A. 2013. Novel insights into the bovine polled phenotype and horn ontogenesis in Bovidae. Plos One 8, e63512.

Angulo L, Guyader-Joly C, Auclair S, Hennequet-Antier C, Papillier P Boussaha M, Fritz S, Hugot K, Moreews F, Ponsart C, Humblot P, Dalbies-Tran R. 2015. An integrated approach of bovine oocyte quality, from the phenotype to the genes. Reprod Fertil Dev. 28, 1276-1287.

Baumung R, Farkas J, Boichard D, Mészáros G, Sölkner J, Curik I. 2015. Grain: a computer program to calculate ancestral and partial inbreeding coefficients using a gene dropping approach. J Anim Breed Genet. 132, 100-108.

Beghain J., Boitard S., Weiss B., Bouhassa M., Gut I., Rocha D. 2013. Genome-wide linkage disequilibrium in the Blonde d'Aquitaine cattle breed. J Anim Breed Genet. 130, 294–302.

Ben Jemaa S, Boussaha M, Ben Mehdi M, Lee JH, Lee SH. 2015. Genome-wide insights into population structure and genetic history of Tunisian local cattle using the Illumina bobine SNP50 BeadChip. BMC Genomics. 16, 677.

Billerey C., Boussaha M., Esquerré D., Rebours E., Djari A., Meersseman C., Klopp C., Gautheret D., Rocha D. 2014. Identification of large intergenic non-coding RNAs in bovine muscle using next-generation transcriptomic sequencing. BMC Genomics. 15, 499.

Boichard D, Ducrocq V, Fritz S. 2015. Sustainable dairy cattle selection in the genomic era. J Anim Breed Genet. 132, 135-143.

Boichard D. 2014. Quel futur pour l'amélioration génétique chez les espèces domestiques ? B Acad Vet France. 167, 103-108.

Boichard D, Govignon-Gion A, Larroque H, Maroteau C, Palhiere I, Tosser-Klopp G, Rupp R, Sanchez MP, Brochard M. 2014. Déterminisme génétique de la composition en acides gras et protéines du lait des ruminants et potentialités de sélection. INRA Prod Anim. 27, 283-298.

Boitard S, Rocha D. 2013. Detection of signatures of selective sweeps in the Blonde d'Aquitaine cattle breed. Anim Genet. 44, 579-583.

Bonnet-Garnier A, Veillard AC, Bed'Hom B, Hayes H, Britton-Davidian J. 2015. Assessing the quality of donor cells: karyotyping methods. Methods Mol Biol. 1222, 83-99.

Boussaha M., Esquerré D., Barbieri J., Djari A., Pinton A., Letaief R., Salin G., Escudié F., Roulet A., Fritz S., Samson F., Grohs C., Bernard M., Klopp C., Boichard D., Rocha D. 2015 Genome-wide study of structural variants in bovine Holstein, Montbeliarde and Normande dairy breeds. Plos One. 10, e0135931.

Bouyer C, Forestier L, Renand G, Oulmouden A. 2014. Deep intronic mutation and pseudo exon activation as a novel muscular hypertrophy modifier in cattle. PLoS ONE. 9, e97399.

Brochard M., Boichard D., Ducrocq V., Fritz S.  2013. La sélection pour des vaches et une production laitière plus durables : acquis de la génétique et opportunités offertes par la sélection génomique. INRA Prod Anim. 26, 139-150.

Brøndum RF, Su G, Janss L, Sahana G, Guldbrandtsen B, Boichard D, Lund MS. 2015. Quantitative trait loci markers derived from whole genome sequence data increases the reliability of genomic prediction. J Dairy Sci. 98, 4107-4116.

Calenge F, Martin C, Le Floch N, Phocas F, Morgavi D, Rogel-Gaillard C, Quere P. 2014. Integrating the characterization of digestive microbiota in phenotyping livestock animals: towards a new tool for animal health control? INRA Prod Anim. 27, 209-222.

Canario L., Mignon-Grasteau S., Dupont-Nivet M., Phocas F. 2013. Genetics of behavioural adaptation of livestock to farming conditions. Animal 7, 357-377
Canario L, Mignon-Grasteau S, Dupont-Nivet M,  Phocas F. 2013. Génétique de l'adaptation comportementale des animaux aux conditions d'élevage: le cas des productions bovines, porcines, avicoles et aquacoles. INRA Prod Anim. 26, 35-50.

Capitan A, Michot P, Baur A, Saintilan R, Hoze C, Valour D, Guillaume F, Boichon D, Barbat A, Boichard D, Schibler L, Fritz S. 2015. Genetic tools to improve reproduction traits in dairy cattle. Reprod Fertil Dev. 27, 14-21.

Chapuis H, Pincent C, Colleau JJ. 2015. Optimizing selection with several constraints in poultry breeding. J Anim Breed Genet. 133, 3-12.

Chriki S, Picard B, Faulconnier Y, Micol D, Brun JP, Reichstadt M, Jurie C, Durand D, Renand G, Journaux ., Hocquette JF. 2013. A data warehouse of muscle characteristics and beef quality in France and a demonstration of potential applications. It J Anim Sci. 12, e41.

Chriki S, Renand G, Picard B, Micol D, Journaux L, Hocquette JF. 2013. Meta-analysis of the relationships between beef tenderness and muscle characteristics. Livest Sci. 155, 424-434.

Colleau JJ, Fritz S, Guillaume F, Baur A, Dupassieux D, Boscher MY, Journaux L, Eggen A, Boichard D. 2015. Simulation des potentialités de la sélection génomique chez les bovins laitiers. INRA Prod Anim. 28, 251-258.

Colombani C., Legarra A., Fritz S., Guillaume F., Croiseau P., Ducrocq V., Robert-Granié C. 2013. Application of Bayesian least absolute shrinkage and selection operator (LASSO) and BayesCTT methods for genomic selection in French Holstein and Montbéliarde breeds. J Dairy Sci. 96, 575-591.

Daetwyler HD, Capitan A, Pausch H, Stothard P,  Van Binsbergen R, Brøndum RF, Liao X, Djari A, Rodriguez S, Grohs C, Jung S, Esquerré D, Gollnick N, Rossignol MN, Klopp C, Rocha D, Fritz S, Eggen A, Bowman P, Coote D, Chamberlain A, Vantassell CP, Huggsle I, Goddard ME, Guldbrandtsen B, Lund MS, Veerkamp R, Boichard D, Fries R,  Hayes BJ. 2014. Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle. Nat Genet. 46, 858-865.

Dezetter C, Leclerc H, Mattalia S, Barbat A, Boichard D, Ducrocq V. 2015. Inbreeding and crossbreeding parameters for production and fertility traits in Holstein, Montbéliarde, and Normande cows. J Dairy Sci. 98, 4904-4913.

Djari A, Esquerré D, Weiss B, Martins F, Meersseman C, Boussaha M, Klopp C, Rocha D. 2013. Gene-based single nucleotide polymorphism discovery in bovine muscle using next-generation transcriptomic sequencing. BMC Genomics 14, 307.

Dunner S., Sevane N., Garcia D., Cortés O., Valentini A., Williams J.L., Mangin B., Canon J., Levéziel H., the GeMQual Consortium. 2013. Association of genes involved in carcass and meat quality traits in 15 European bovine breeds. Livest Sci. 154, 34-44.

Dunner S., Sevane N., Garcia D., Levéziel H., Williams J.L., Mangin B., Valentini A., the GeMQual Consortium. 2013. Genes involved in muscle lipid composition in 15 European Bos Taurus breeds. Anim Genet. 44, 493-501.

Faure J., Lefaucheur L., Bonhomme N., Ecolan P., Meteau K., Coustard S.M., Kouba M., Gilbert H., Lebret B. 2013. Consequences of divergent selection for residual feed intake in pigs on muscle energy metabolism and meat quality. Meat Sci. 93, 37-45.

Ferrand-Calmels M, Palhière I, Brochard M, Leray O, Astruc JM, Aurel MR, Barbey S, Bouvier F, Brunschwig P, Caillat H, Douguet M, Faucon-Lahalle F, Gelé M, Thomas G, Trommenschlager JM, Larroque H.2014. Prediction of fatty acid profiles in cow, ewe, and goat milk by mid-infrared spectrometry. J Dairy Sci. 97, 17-35.

Floriot S, Vesque C, Rodriguez S, Bourgain-Guglielmetti F, Karaiskou A, Gautier M, Duchesne A, Barbey S, Fritz S, Vasilescu A, Bertaud M, Moudjou M, Halliez S, Cormier-Daire V, El Hokayem J, Nigg EA, Manciaux L, Guatteo R, Cesbron N, Toutirais G, Eggen A, Schneider-Maunoury S, Boichard D, Sobczak-Thépot J, Schibler L. 2015. C-Nap1 mutation affects centriole cohesion and is associated with a Seckel-like syndrome in cattle. Nat Commun. 6, 6894.

Filloux C, Meersseman C, Philippe R, Forestier L, Klopp C, Rocha D, Maftah A, Petit D. 2014. An integrative method to normalize RNA-Seq data. BMC Bioinformatics. 15, 188.

Fritz S., Capitan A., Djari A., Rodriguez S.C., Barbat A., Baur A., Grohs C., Weiss B., Boussaha M., Esquerre D., Klopp C., Rocha D., Boichard D. 2013. Detection of haplotypes associated with prenatal death in dairy cattle and identification of deleterious mutations in GART, SHBG and SLC37A2. Plos One 8, e65550

Gertz EM, Schäffer AA, Agarwala R, Bonnet-Garnier A, Rogel-Gaillard C, Hayes H, Mage RG. 2013. Accuracy and coverage assessment of Oryctolagus cuniculus (rabbit) genes encoding immunoglobulins in the whole genome sequence assembly (OryCun2.0) and localization of the IGH locus to chromosome 20. Immunogenetics 65, 749-762.

Gunia M, Phocas F, Gourdine JL, Bijma P, Mandonnet N. 2013. Simulated selection responses for breeding programs including resistance and resilience to parasites in Creole goats. J Anim Sci. 91, 572-581.

Gunia M., Mandonnet N., Arquet R., Alexandre G., Gourdine J-L., Naves M., Angeon V., Phocas F. 2013. Economic values of body weight, reproduction and parasite resistance traits for a Creole goat breeding goal. Animal 7, 22-33

Gunia M, Saintilan R, Venot E, Hozé C, Fouilloux MN, Phocas F. 2014. Genomic prediction in French Charolais beef cattle using high-density single nucleotide polymorphism markers. J Anim Sci. 92, 3258-3269.

Hocquette JF, Cassar Malek I, Jurie C, Bauchart D, Picard B, Renand G. 2015. Caractéristiques musculaires des bovins sélectionnés pour la croissance musculaire. Viandes et Produits Carnés. 31, 1-8.

Hoze C, Fritz S, Phocas F, Boichard D, Ducrocq V, Croiseau P. 2014. Efficiency of multi-breed genomic selection for dairy cattle breeds with reference populations of different sizes. J Dairy Sci. 97, 3918-3929.

Hoze C, Fouilloux MN, Venot E, Guillaume F, Dassonneville R, Fritz S, Ducrocq V, Phocas F, Boichard D, Croiseau P. 2013. High-density marker imputation accuracy in sixteen French cattle breeds. Genet Sel Evol. 45, 33.

Jenko J., Ducrocq V., Kovac M. 2013. Comparison of piecewise Weibull baseline survival models for estimation of true and functional longevity in Brown cattle raised in small herds. Animal 7, 1583-159.

Jenko J., Gorjanc G., Kovac, M., Ducrocq V. 2013. Comparison between sire-maternal grandsire and animal models for genetic evaluation of longevity in dairy cattle populations with small herds. J Dairy Sci. 96, 8002-8013.

Labatut J, Astruc JM, Barillet F, Boichard D, Ducrocq V, Griffon L, Lagriffoul G. 2014. Implications organisationnelles de la sélection génomique: analyses et accompagnement. INRA Prod Anim. 27, 303-316.

Larzul C, Ducrocq V, Tudela F, Juin H, Garreau H. 2014. The length of productive life can be modified through selection: an experimental demonstration in the rabbit. J Anim Sci. 92, 2395-2401.

Le Bihan-Duval E, Talon R, Brochard M, Gautron J, Lefevre E, Larzul C, Baeza E, Hocquette JF. 2014. Phenotyping of animal product quality: challenges and innovations. INRA Prod Anim. 27, 223-234.

Ledoux D, Ponsart C, Grimard B, Gatien J, Deloche MC, Fritz S, Lefebvre R, Humblot P. 2015. Sire effect on early and late embryonic death in French Holstein cattle. Animal. 9, 766-774.

Legarra A, Croiseau P, Sanchez MP, Teyssèdre S, Sallé G, Allais S, Fritz S, Moreno CR, Ricard A, Elsen JM. 2015. A comparison of methods for whole-genome QTL mapping using dense markers in four livestock species. Genet Sel Evol. 47, 6.

Léjard V, Rebours E, Meersseman C, Rocha D. 2014. Construction and validation of a novel dual reporter vector for studying bidirectional promoters. Plasmid. 74, 1-8.

Leroy G, Phocas F, Hedan B, Verrier E, Rognon X. 2015. Inbreeding impact on litter size and survival in selected canine breeds Vet J. 203, 74-78.

Lopez-Rios J, Duchesne A, Speziale D, Andrey G, Peterson KA, German P, Ünal E, Liu J, Floriot S, Barbey S, Gallard Y, Müller-Gerbl M, Courtney AD, Klopp C, Rodriguez S, Ivanek R, Beisel C, Wicking C, Iber D, Robert B, McMahon AP, Duboule D, Zeller R. 2014. Attenuated sensing of SHH by Ptch1underlies evolution of bovine limbs. Nature.  511, 46-51.

Meersseman C, Lejard V, Rebours E, Boussaha M, Maftah A, Petit D, Rocha D. 2014. Bovine TWINKLE and mitochondrial ribosomal protein L43 genes are regulated by an evolutionary conserved bidirectional promoter. Gene. 537, 154-163.

Meszaros G, Sölkner J, Ducrocq V. 2013 The Survival Kit: Software to analyze survival data including possibly correlated random effects. Comput. Methods Programs Biomed. 110, 503-510.

Mialon MM, Renand G,  Ortigues-Marty I,  Bauchart D, Hocquete JF, Mounier L, Noël T, Micol D, Doreau M. 2015. Fattening performances, metabolic indicators and muscle composition of bulls fed fiber-rich vs starch-plus-lipid-rich concentrate diets. J Anim Sci. 93, 319-322.

Michot P, Fantini O, Braques R, Allais-Bonnet A, Saintilan R, Grohs C, Barbieri J, Genestout L, Danchin C, Gourreau JM, Boichard D, Pin D, Capitan A. 2015. Whole-genome sequencing identifies a homozygous deletion encompassing exons 17 to 22 of the integrin beta 4 gene in a Charolais calf with junctional epidermolysis bullosa. Genet Sel Evol. 47, 37.

Mobuchon L, Marthey S, Boussaha M, Le Guillou S, Leroux C, Le Provost F. 2015. Annotation of the goat genome using next generation sequencing of microRNA expressed by the lactating mammary gland: comparison of three approaches. BMC Genomics. 16, 285.

Monniaux D., Drouilhet L., Rico C., Estienne A., Jarrier P., Touze J.L., Sapa J., Phocas F., Dupont J., Dalbies-Tran R., Fabre S. 2013. Regulation of anti-Mullerian hormone production in domestic animals. Reprod Fert Dev. 25, 1-16.

Patry C, Jorjani H, Ducrocq V. 2013. Effects of a national genomic preselection on the international genetic evaluations. J Dairy Sci. 96, 3272-3284.

Pfeiffer C, Fuerst C, Ducrocq V, Fuerst-Waltl B. 2015. Genetic relationships between functional longevity and direct health traits in Austrian Fleckvieh cattle. J Dairy Sci. 98, 7380-7383.

Phocas F,  Agabriel J , Dupont-Nivet M, Geurden I, Médale F, Mignon-Grasteau S, Gilbert H, Dourmad J-Y. 2014. Phenotyping for feed efficiency and its components, a need to improve the efficiency of livestock production. INRA Prod Anim. 27, 235-247.

Phocas F, Bobe J, Bodin L, Charley B,  Dourmad JY, Friggens NC, Hocquette JF, Le Bail PY, Le Bihan-Duval E, Mormède P, Quéré P, Schelcher F. 2014. Des animaux plus robustes : un enjeu majeur pour le développement durable des productions animales nécessitant l’essor du phénotypage fin et à haut débit. INRA Prod Anim. 27, 181-194.

Picard B, Lebret B, Cassar-Malek I, Liaubet L, Berri, C Le Bihan-Duval E, Hocquette JF, Renand G. 2015. Recent advances in omic technologies for meat quality management. Meat Sci. 109, 18-26.

Picard B, Lebret B, Cassar-Malek I, Liaubet L, Berri C, Bihan-Duval E, Lefevre F, Hocquette JF, Renand. 2015. Genomic markers usable for meat quality assessment. Prod Anim. 28, 183-195.

Richard M, Renand G, Ortigues I, Bauchart D, Hocquette JF, Mounier L, Noel T, Micol D, Doreau M. 2015. Fattening performance, metabolic indicators, and muscle composition of bulls fed fiber-rich versus starch-plus-lipid-rich concentrate diets. J Anim Sci. 93, 319-333.

Rocha D, Billerey C, Samson F, Boichard D, Boussaha M. 2014. Identification of the putative ancestral allele of bovine single-nucleotide polymorphisms. J Anim Breed Genet. 131, 483-486

Saintilan R, Brossard L, Vautier B, Sellier P, Bidanel J, van Milgen J, Gilbert H. 2015. Phenotypic and genetic relationships between growth and feed intake curves and feed efficiency and amino acid requirements in the growing pig. Animal. 9, 18-27.

Schrooten C., Dassonneville R., Ducrocq V., Brondum R.F., Lund M.S., Chen J., Liu Z., Gonzalez-Recio O., Pena J., Druet T. 2014. Error Rate for Imputation from Illumina BovineSNP50 to Illumina BovineHD. Genet Sel Evol. 46, 10.

Sevane N. , Armstrong E., Cortes O., Wiener P., Pong Wong R., Dunner S., the GeMQual Consortium. 2013. Association of bovine meat quality traits with genes included in the PPARG and PPARGC1A networks. Meat Sci. 94, 328-335.

Sevane N, Levéziel H,  Nute GR, Sañudo C, Valentini A, Williams J, Dunner S and the GeMQual Consortium (Renand G). 2014. Phenotypic and genotypic background underlying variations in fatty acid composition and sensory parameters in European bovine breeds. J Anim Sci Biotechnol. 5, 20.

Sevane N1, Armstrong E, Wiener P, Pong Wong R, Dunner S; GemQual Consortium (Renand G). 2014. Polymorphisms in twelve candidate genes are associated with growth, muscle lipid profile and meat quality traits in eleven European cattle breeds. Mol Biol Rep. 41, 4721-4731.

Tribout T., Larzul C., Phocas F. 2013. Economic interest of implementing genomic evaluations in a pig male line breeding scheme. Genet Sel Evol. 45, 40.

Valour D, Michot P, Eozenou C, Lefebvre R, Bonnet A, Capitan A, Uzbekova S, Sellem E, Ponsart C, Schibler L. 2015. Dairy cattle reproduction is a tightly regulated genetic process: Highlights on genes, pathways, and biological processes. Animal Frontiers. 5, 32-41.

Valenti B, Martin B, Andueza D, Leroux C, Labonne C, Lahalle F, Larroque H, Brunschwige P, Lecomte C, Brochard M, Ferlay A. 2013. Infrared spectroscopic methods for the discrimination of cows' milk according to the feeding system, cow breed and altitude of the dairy farm. Int Dairy J. 32, 26-32.

Van Den Berg I, Fritz S, Boichard D. 2013. QTL fine mapping with Bayesian C(π): a simulation study. Genet Sel Evol. 45, 19.

Van den Berg I, Fritz I, Rodriguez S, Rocha R, Boussaha M, Lund MS, Boichard D. 2014. Concordance analysis for QTL detection in dairy cattle: a case study of leg morphology. Genet Sel Evol. 46, 31.