Recent publications
Fouéré C, Sanchez MP, Boussaha M, Fritz S, Vinet A, Kieffer H, Boichard D, Hoze C. 2024. A large population study to assess the magnitude of prenatal programming in dairy cattle. J Dairy Sci. https://doi.org/10.3168/jds.2023-24051
Vinet A, Mattalia S, Vallée R, Bertrand C, Barbat A, Promp J, Cuyabano BCD, Boichard D. 2024. Effect of temperature-humidity index on the evolution of trade-offs between fertility and production in dairy cattle. Gen Sel Evol. https://doi.org/10.1186/s12711-024-00889-4
2024
Ben Braiek M, Moreno-Romieux C, Andre C, Astruc JM, Bardou P, Bordes A, Debat F, Fidelle F, Granado-Tajada I, Hoze C, Plisson-Petit F, Rivemale F, Sarry J, Tadi N, Woloszyn F, Fabre S. 2024. Searching for homozygous haplotype deficiency in Manech Tête Rousse dairy sheep revealed a nonsense variant in the MMUT gene affecting newborn lamb viability. Genet Sel Evol. https://doi.org/10.1186/s12711-024-00886-7
Coste V, Sellem E, Marthey S, Hoze C, Bonnet A, Schibler L, Kieffer H, Jaffrezic F. 2024. Multi-omics data integration for the identification of predictive biomarkers for bull fertility. PlosOne. https://doi.org/10.1371/journal.pone.0298623
Cuyabano BCD, Boichard D, Gondro C.2024. Expected values for the accuracy of predicted breeding values accounting for genetic differences between reference and target populations. Genet Sel Evol. G2B https://doi.org/10.1186/s12711-024-00876-9
Fresco S, Boichard D, Lefebvre R, Barbey S, Gaborit M, Fritz S, Martin P. 2024. Correlation of methane production, intensity, and yield with residual feed intake throughout lactation in Holstein cows. Animal. https://doi.org/10.1016/j.animal.2024.101110
The FarmGTEx PigGTEx Consortium,... Giuffra E... Rocha D, Charles M,... Fang L. 2024. A compendium of genetic regulatory effects across pig tissues. Nature comm. https://doi.org/10.1038/s41588-023-01585-7
2023
Arnal M, Robert-Granié C, Ducrocq V, Larroque H. 2023. Validation of single-step genomic BLUP random regression test-day models and SNP effects analysis on milk yield in French Saanen goats. J Dairy Sci.
Ben Abdelkrim A, Ithurbide M, Larsen T, Shmidely P, Friggens NC. 2023. Milk metabolites can characterise individual differences in animal resilience to a nutritional challenge in lactating dairy goat. Animal
Ben-Jemaa S, Adam G, Boussaha M, Bardou P, Klopp C, Mandonnet N, Naves M. 2023. Whole genome sequencing reveals signals of adaptive admixture in Creole cattle. Scientific reports.
Besnard F, Leclerc H, Boussaha M, Grohs C, Jewell N, Pinton A, Barsac H, Jourdain J, Femenia M, Dorso L, Strugnell B, Floyd T, Danchin-Burge C, Guatteo R, Cassart D, Hubin X, Mattalia S, Boichard D, Capitan A. 2023. Detailed analysis of mortality rates in the female progeny of 1001 Holstein bulls allows the discovery of new dominant genetic defects. J Dairy Sci
Boussaha M, Boulling A, Wolgust V, Bourgeois-Brunel L, Michot P, Grohs C, Gaiani N, Grivaud P-Y, Leclerc H, Danchin-Burge C, Vilotte M, Rivière J, Boichard D, Gourreau J-M, Capitan A. 2023. Integrin alpha 6 homozygous splice-site mutation causes a new form of junctional epidermolysis bullosa in Charolais cattle Genet Sel Evol.
Cantalapiedra-Hijar G, Martin C, Andueza D, Popova M, Morgavi D, Ortiz-Chura A, Graulet B, Cassar-Malek I, Bonnet M, De La Torre A, Renand G, Taussat S, Ortigues-Marty I, Nozière P. 2023. Mécanismes biologiques à l’origine des différences inter-individuelles de l’efficience alimentaire chez le bovin allaitant. Prod Animales. https://doi.org/10.20870/productions-animales.2023.36.3.7299
Chavinskaia L, Labatut J. 2023. Technologies de l’élevage moderne : l’amélioration génétique des bovins. revue-regards-croises-sur-l-economie. https://www.cairn.info/tap-9xzvppgj4o2i1.
Costilla R, Zeng J, Al Kalaldeh M, Swaminathan M, Gibson J P, Ducrocq V, Hayes B J. 2023. Developing flexible models for genetic evaluations in smallholder crossbred dairy farms. J Dairy Sci. https://doi.org/10.3168/jds.2022-23135
Daniel-Carlier N, Castille J, Passet B, Vilotte M, Le Danvic C, Jaffrezic F, Beauvallet C, Pechoux C, Capitan A, Vilotte J-L. 2023. Targeted mutation and inactivation of the kinesin light chain 3 protein-encoding gene have no impact on mouse fertility. Biology of reproduction.https://doi.org/10.1093/biolre/ioad131
Delosiere M, Bernard L, Hurtaud C, Guilleton M, Viala D, Rau A, Bonnet M, Cebo C. 2023. Protein signatures of spontaneous lipolysis and lipoprotein lipase activity in cow's milk. Journal of proteomics.
Eche C, Iampietro C, Birbes C, Dreau A, Kuchly C, Di Franco A, Klopp C, Faraut T, Djebali S, Castinel A, Zytnicki M, Denis E, Boussaha M, Grohs C, Boichard D, Gaspin C, Milan D, Donnadieu C. 2023. A Bos taurus sequencing methods benchmark for assembly, haplotyping, and variant calling. Scientific Data
Fresco S, Boichard D, Fritz S, Lefebvre R, Barbey S, Gaborit M, Martin P. 2023. Comparison of methane production, intensity, and yield throughout lactation in Holstein cows. J Dairy Sci.
Gaiani N, Bourgeois-Brunell L, Rocha D, Boulling A. 2023. Analysis of the impact of DGAT1 p.M435L and p.K232A variants on pre-mRNA splicing in a full-length gene assay. Sci Report.
Hurtaud C, Bernard L, Boutinaud M, Cebo C. 2023. Feed restriction as a tool for further studies describing the mechanisms underlying lipolysis in milk in dairy cows. Animal.
Jourdain J, Barasc H, Faraut T, Calgaro A, Bonnet N, Marcuzzo C, Suin A, Barbat A, Hozé C, Besnard F, Taussat S, Grohs C, Kuchly C, Iampietro C, Donnadieu C, Pinton A, Boichard D, Capitan A. 2023. Large-scale detection and characterization of interchromosomal rearrangements in normozoospermic bulls using massive genotype and phenotype datasets. Genome Res
Labatut J. 2023. Towards a biosocial turn in management and organization research? Proposals for a paradigm shift. Sage Journals https://doi.org/10.1177/13505084231183034
Lefebvre R, Faverdin P, Barbey S, Jurquet J, Tribout T, Boichard D, Martin P. 2022. Association between body condition genomic values and feed intake, milk production, and body weight in French Holstein cows. J. Dairy Sci
Mariadassou M, Nouvel L, Constant F, Morgavi D, Rault L, Barbey R, Helloin E, Rue O, Schbath S, Launay F, Sandra O, Lefebvre R, Le Loir Y, Germon P, Citti C, Even S. 2023. Microbiota members from body sites of dairy cows are largely shared within individual hosts throughout lactation but sharing is limited in the herd. Anim Microbiome
Martin P, Taussat S, Vinet A, Launay F, Dozias D, Maupetit D, Villalba D, Friggens NC, Renand G. 2023. Précocité, efficience et résilience des femelles allaitantes. INRAE Prod Anim https://doi.org/10.20870/productions-animales.2023.36.3.7300
Martin P, Vinet A, Launay F, Dozias D, Maupetit D, Renand G. 2023. Short communication: Variability of response to feed restriction in lactating Charolais cows. Animal
Maugan LH, Rostellato R, Tribout T, Mattalia S, Ducrocq V. 2023. Combined single-step evaluation of functional longevity of dairy cows including correlated traits. Genet Sel Evol. https://doi.org/10.1186/s12711-023-00839-6
Raffo MA, Cuyabano BCD, Rincent R, Sarup P, Moreau L, Mary-Huard T, Jensen J. 2023. Genomic prediction for grain yield and micro-environmental sensitivity in winter wheat. Front Plant Sci
Sahana G, Cai Z. Sanchez MP, Bouwman A, Boichard D. 2023. Invited review: Good practices in genome-wide association studies to identify candidate sequence variants in dairy cattle. J. Dairy Sci.
Sanchez MP, Escouflaire C, Baur A, Bottin F, Hoze C, Boussaha M, Fritz S,Capitan A, Boichard D. 2023. X-linked genes influence various complex traits in dairy cattle. BMC Genomics.
Sanchez MP, Tribout T, Kadri N, Chitneedi PK, Maak S, Hoze C, Boussaha M, Croiseau P, Philippe R, Spengeler M, Kuhn C, Wang Y, Li C, Plastow G, Pausch H, Boichard D. Sequence-based meta-analyses for beef production traits. Genet Sel Evol. https://doi.org/10.1186/s12711-023-00848-5
Signer-Hasler H, Casanova L, Barenco A, Maitre B, Bagnato A, Vevey M, Berger B, Simcic M, Boichon D, Capitan A, Medugorac I, Bennewitz J, Meszaros G, Solkner J, Drogemuller C, Flury C. 2023. Genomic regions underlying positive selection in local, Alpine cattle breeds. Animal Genetics
Smith TPL, Bickhart DM, Boichard D, Chamberlain AJ, Djikeng A, Jiang Y, Low WY, Pausch H, Demyda-Peyrás S, Prendergast J, Schnabel RD. 2023. The Bovine Pangenome Consortium: democratizing production and accessibility of genome assemblies for global cattle breeds and other bovine species. Genome Biology
Stephansen R B, Martin P, Manzanilla-Pech C I V, Gredler-Grandl B, Sahana G, Madsen P, Weigel K, Tempelman R J, Penagaricano F, Gaddis K L Parker, White H M, Santos J E P, Koltes J E, Schenkel F, Hailemariam D, Plastow G, Abdalla E, VandeHaar M, Veerkamp R F, Baes C, Lassen J. 2023. Novel genetic parameters for genetic residual feed intake in dairy cattle using time series data from multiple parities and countries in North America and Europe. J. Dairy Sci. https://doi.org/10.3168/jds.2023-23330
Taussat S, Cantalapiedra-Hijar G, Agabriel J, Renand G, Brouard S, Griffon L, Martin P. 2023. Caractériser les déterminants physiologiques et génétiques de l’efficience alimentaire des bovins allaitants : le programme BEEFALIM. INRAE Prod Anim. https://doi.org/10.20870/productions-animales.2023.36.3.7816
Taussat S, Fossaert C, Cantalapiedra-Hijar G, Griffon L, Martin P, Renand G. 2023. Paramètres génétiques de l’efficience alimentaire et faisabilité d’une sélection en population bovine allaitante. INRAE Prod Anim. https://doi.org/10.20870/productions-animales.2023.36.3.7330
Tribout T, Minéry S, Vallée R, Saille S, Saunier D, Martin P, Ducrocq V, Faverdin P, Boichard D. 2023. Genetic relationships between weight loss in early lactation and daily milk production throughout the lactation in Holstein cows. J. Dairy Sci.
Van Niekerk M, Neser F, Van Wyk J, Ducrocq V. 2023. Comparison of fixed and random regression models for the analysis of milk production traits in South African Holstein dairy cattle under two production systems. Livestock Science.
Vinet A, Mattalia S, Vallée R, Bertrrand C, Cuyabano BC D, Boichard D. 2023. Estimation of genotype by temperature-humidity index interactions on milk production and udder health traits in the Montbeliarde cows. Genet Sel Evol
2022
Belay T.K., Eikje L.S., Gjuvsland A.B., Nordbø O., Tribout T., Meuwissen T.H.E. 2022. Correcting for base-population differences and unknown parent groups in single-step genomic predictions of Norwegian Red Cattle. J Anim Sci, 100, skac227.
Bes A, Noziere P, Renand G, Rochette Y, Guarnido-Lopez P, Cantalapiedra-Hijar G, Martin C. 2022. Individual methane emissions (and other gas flows) are repeatable and their relationships with feed efficiency are similar across two contrasting diets in growing bulls. Animal. 16:100583.
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. 14:54.
Ducrocq V, Cadet A, Patry C, van der Westhuizen L, van Wyk JB, Neser FWC. 2022. Two approaches to account for genotype-by-environment interactions for production traits and age at first calving in South African Holstein cattle. Gen Sel Evol. 54:43.
Hauser M, Signer-Hasler H, Kuettel L, Capitan A, Guldbrandtsen B, Hinrichs D, Flury C, Seefried FR, Droegemueller C. 2022. Identification of two new recessive MC1R alleles in red-coloured Evolener cattle and other breeds. Anim Genet. 53:427-435.
Jorge-Smeding E, Polakof S, Bonnet M, Durand S, Centeno D, Pétéra M, Taussat S, Cantalapiedra-Hijar G. 2022. Untargeted metabolomics confirms the association between plasma branched chain amino acids and residual feed intake in beef heifers. Plos One.
Grohs C, Boussaha M, Hozé C, Capitan A. 2022. Rare cases of hernia of the linea alba among TWIST1 haploinsufficient Charolais cattle. Anim Genet. 53:239-241.
Karaman E, Su G, Croue I, Lund MS. 2021. Genomic prediction using a reference population of multiple pure breeds and admixed individuals. Genet Sel Evol. 53, 46.
Lesueur J, Walachowski S, Barbey S, Cebron N, Lefebvre R, Launay F, Boichard D, Germon P, Corbiere F, Foucras G. 2022. Standardized whole blood assay and bead-based cytokine profiling reveal commonalities and diversity of the response to bacteria and TLR ligands in cattle. Front. Immunol. 13:871780.
Liu S, Gao Y, Canela-Xandri O, Wang S, Yu Y, Cai W, Li B, Xiang R, Chamberlain A.J., Pairo-Castineira E., D'mellow K., Rawlik K, Xia C., Yao Y., Navarro P, Rocha D., Li X., Yan Z., Li C., Rosen B.D., Van Tassell C.P., Vanraden P.M., Zhang S., Ma L., Cole J.B., Liu G.E., Tenesa A., Fang L. 2022. A comprehensive catalogue of regulatory variants in the cattle transcriptome. Nature Genetics. 54:1438-1447.
Mattalia S, Brochard M, Burlot T. 2021. Formation pour les opérateurs de la sélection: évolutions des pratiques et anticipation des besoins. Ethnozootechnie. 109, 19-27
Martin P, Vinet A, Allart L, Launay F, Dozias D, Maupetit D, Renand G. 2022. Influence of feed restriction and subsequent recovery on lactating Charolais cows. Livestock Science, 264, 105077
Mollandin F., Gilbert H., Croiseau P., Rau A. 2022. Accounting for overlapping annotations in genomic prediction models of complex traits. BMC Bioinformatics, 23, 365.
Palhière I, Gousseau V, Colleau JJ. 2022. La Sélection à Parenté Minimum Génomique : principes et résultats pour les deux races caprines laitières principales françaises. INRAE Prod Anim.
Rostellato R., Lora I., Promp J., Cassandro M., Ducrocq V., Cozzi G. 2022. Factors affecting true and functional productive lifespan in Italian Holstein-Friesian cows. Italian Journal of Animal Science, 21, 1268–1276
Sanchez MP, Tribout T, Fritz S, Guatteo R, Fourichon C, Schibler L, Delafosse A, Boichard D. 2022. New insights into genetic resistance to paratuberculosis in Holstein cattle via a single-step genomic evaluation. Gen Sel Evol. 54:67.
Sanchez MP, Tribout T, Fritz S, Wolf V, Laithier C, Brochard M, Boichard D. 2022. Opportunities for genomic selection of cheese-making traits in Montbéliarde cows. J. Dairy Sci. 105:5206-5220.
Vaiman A., Fritz S., Beauvallet C., Boussaha M., Grohs C., Daniel-Carlier N., Relun A., Boichard D., Vilotte J.L., Duchesne A. 2022. Mutation of MYH3 gene causes recessive cleft palate syndrome in Limousin cattle. Genet Sel Evol. 54:71
Xiang R., Fang L., Sanchez M.-P., Cheng H., Zhang Z. 2022. Editorial: multi-layered genome-wide association and prediction in animals. Frontiers in Genetics, 13:877748.
Zened A, Forano E, Delbes C, Verdier-Metz I, Morgavi D, Popova M, Ramayo-Caldas Y, Bergonier D, Meynadier A, Marie-Etancelin C. 2021. 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
2021
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
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.
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, 19580
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.
Jorge-Smeding E, Bonnet M, Renand G, Taussat S, Graulet B, Ortigues-Marty I, Cantalapiedra-Hijar G. 2021. Common and diet-specific metabolic pathways underlying residual feed intake in fattening Charolais yearling bulls. Sci Rep
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, Fischer A, Friggens NC. 2021. Combining datasets in a dynamic residual feed intake model and comparison with linear model results in lactating Holstein cattle. Animal. 15
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
Mesbah-Uddin M, Guldbrandtsen B, Capitan A, Lund MS, Boichard D, Sahana G. 2021. Genome-wide association study with imputed whole-genome sequence variants including large deletions for female fertility in 3 Nordic dairy cattle breeds. J. Dairy Sci. 105
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. jkab225
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
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
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.
2020
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. chapitre 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.
2019
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
2018
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.
2017
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. 2017. A 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.
2016
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.
