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Genome-wide association study for milking speed in French Holstein cows

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Genome-wide association study for milking speed in French Holstein cows. / Marete, Andrew Gitahi; Sahana, Goutam; Fritz, Sebastian et al.

In: Journal of Dairy Science, Vol. 101, No. 7, 07.2018, p. 6205-6219.

Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaperJournal articleResearchpeer-review

Harvard

Marete, AG, Sahana, G, Fritz, S, Lefebvre, R, Barbat, A, Lund, MS, Guldbrandtsen, B & Boichard, D 2018, 'Genome-wide association study for milking speed in French Holstein cows', Journal of Dairy Science, vol. 101, no. 7, pp. 6205-6219. https://doi.org/10.3168/jds.2017-14067

APA

Marete, A. G., Sahana, G., Fritz, S., Lefebvre, R., Barbat, A., Lund, M. S., Guldbrandtsen, B., & Boichard, D. (2018). Genome-wide association study for milking speed in French Holstein cows. Journal of Dairy Science, 101(7), 6205-6219. https://doi.org/10.3168/jds.2017-14067

CBE

Marete AG, Sahana G, Fritz S, Lefebvre R, Barbat A, Lund MS, Guldbrandtsen B, Boichard D. 2018. Genome-wide association study for milking speed in French Holstein cows. Journal of Dairy Science. 101(7):6205-6219. https://doi.org/10.3168/jds.2017-14067

MLA

Marete, Andrew Gitahi et al. "Genome-wide association study for milking speed in French Holstein cows". Journal of Dairy Science. 2018, 101(7). 6205-6219. https://doi.org/10.3168/jds.2017-14067

Vancouver

Marete AG, Sahana G, Fritz S, Lefebvre R, Barbat A, Lund MS et al. Genome-wide association study for milking speed in French Holstein cows. Journal of Dairy Science. 2018 Jul;101(7):6205-6219. https://doi.org/10.3168/jds.2017-14067

Author

Marete, Andrew Gitahi ; Sahana, Goutam ; Fritz, Sebastian et al. / Genome-wide association study for milking speed in French Holstein cows. In: Journal of Dairy Science. 2018 ; Vol. 101, No. 7. pp. 6205-6219.

Bibtex

@article{69a6c5fa3f5b438988ad7cce3f7f1163,
title = "Genome-wide association study for milking speed in French Holstein cows",
abstract = "Using a combination of data from the BovineSNP50 BeadChip SNP array (Illumina, San Diego, CA) and a EuroGenomics (Amsterdam, the Netherlands) custom single nucleotide polymorphism (SNP) chip with SNP pre-selected from whole genome sequence data, we carried out an association study of milking speed in 32,491 French Holstein dairy cows. Milking speed was measured by a score given by the farmer. Phenotypes were yield deviations as obtained from the French evaluation system. They were analyzed with a linear mixed model for association studies. We identified SNP on 22 chromosomes significantly associated with milking speed. As clinical mastitis and somatic cell score have an unfavorable genetic correlation with milking speed, we tested whether the most significant SNP on these 22 chromosomes associated with milking speed were also associated with clinical mastitis or somatic cell score. Nine hundred seventy-one genome-wide significant SNP were associated with milking speed. Of these, 86 were associated with clinical mastitis and 198 with somatic cell score. The most significant association signals for milking speed were observed on chromosomes 7, 8, 10, 14, and 18. The most significant signal was located on chromosome 14 (ZFAT gene). Eleven novel milking speed quantitative trait loci (QTL) were observed on chromosomes 7, 10, 11, 14, 18, 25, and 26. Twelve candidate SNP for milking speed mapped directly within genes. Of these 10 were QTL lead SNP, which mapped within the genes HMHA1, POLR2E, GNB5, KLHL29, ZFAT, KCNB2, CEACAM18, CCL24, and LHPP. Limited pleiotropy was observed between milking speed QTL and clinical mastitis.",
keywords = "bovine, genome-wide association study, mastitis, milking speed, pleiotropy",
author = "Marete, {Andrew Gitahi} and Goutam Sahana and Sebastian Fritz and Rachel Lefebvre and Anne Barbat and Lund, {Mogens Sand{\o}} and Bernt Guldbrandtsen and Didier Boichard",
year = "2018",
month = jul,
doi = "10.3168/jds.2017-14067",
language = "English",
volume = "101",
pages = "6205--6219",
journal = "Journal of Dairy Science",
issn = "0022-0302",
publisher = "Elsevier Inc.",
number = "7",

}

RIS

TY - JOUR

T1 - Genome-wide association study for milking speed in French Holstein cows

AU - Marete, Andrew Gitahi

AU - Sahana, Goutam

AU - Fritz, Sebastian

AU - Lefebvre, Rachel

AU - Barbat, Anne

AU - Lund, Mogens Sandø

AU - Guldbrandtsen, Bernt

AU - Boichard, Didier

PY - 2018/7

Y1 - 2018/7

N2 - Using a combination of data from the BovineSNP50 BeadChip SNP array (Illumina, San Diego, CA) and a EuroGenomics (Amsterdam, the Netherlands) custom single nucleotide polymorphism (SNP) chip with SNP pre-selected from whole genome sequence data, we carried out an association study of milking speed in 32,491 French Holstein dairy cows. Milking speed was measured by a score given by the farmer. Phenotypes were yield deviations as obtained from the French evaluation system. They were analyzed with a linear mixed model for association studies. We identified SNP on 22 chromosomes significantly associated with milking speed. As clinical mastitis and somatic cell score have an unfavorable genetic correlation with milking speed, we tested whether the most significant SNP on these 22 chromosomes associated with milking speed were also associated with clinical mastitis or somatic cell score. Nine hundred seventy-one genome-wide significant SNP were associated with milking speed. Of these, 86 were associated with clinical mastitis and 198 with somatic cell score. The most significant association signals for milking speed were observed on chromosomes 7, 8, 10, 14, and 18. The most significant signal was located on chromosome 14 (ZFAT gene). Eleven novel milking speed quantitative trait loci (QTL) were observed on chromosomes 7, 10, 11, 14, 18, 25, and 26. Twelve candidate SNP for milking speed mapped directly within genes. Of these 10 were QTL lead SNP, which mapped within the genes HMHA1, POLR2E, GNB5, KLHL29, ZFAT, KCNB2, CEACAM18, CCL24, and LHPP. Limited pleiotropy was observed between milking speed QTL and clinical mastitis.

AB - Using a combination of data from the BovineSNP50 BeadChip SNP array (Illumina, San Diego, CA) and a EuroGenomics (Amsterdam, the Netherlands) custom single nucleotide polymorphism (SNP) chip with SNP pre-selected from whole genome sequence data, we carried out an association study of milking speed in 32,491 French Holstein dairy cows. Milking speed was measured by a score given by the farmer. Phenotypes were yield deviations as obtained from the French evaluation system. They were analyzed with a linear mixed model for association studies. We identified SNP on 22 chromosomes significantly associated with milking speed. As clinical mastitis and somatic cell score have an unfavorable genetic correlation with milking speed, we tested whether the most significant SNP on these 22 chromosomes associated with milking speed were also associated with clinical mastitis or somatic cell score. Nine hundred seventy-one genome-wide significant SNP were associated with milking speed. Of these, 86 were associated with clinical mastitis and 198 with somatic cell score. The most significant association signals for milking speed were observed on chromosomes 7, 8, 10, 14, and 18. The most significant signal was located on chromosome 14 (ZFAT gene). Eleven novel milking speed quantitative trait loci (QTL) were observed on chromosomes 7, 10, 11, 14, 18, 25, and 26. Twelve candidate SNP for milking speed mapped directly within genes. Of these 10 were QTL lead SNP, which mapped within the genes HMHA1, POLR2E, GNB5, KLHL29, ZFAT, KCNB2, CEACAM18, CCL24, and LHPP. Limited pleiotropy was observed between milking speed QTL and clinical mastitis.

KW - bovine

KW - genome-wide association study

KW - mastitis

KW - milking speed

KW - pleiotropy

U2 - 10.3168/jds.2017-14067

DO - 10.3168/jds.2017-14067

M3 - Journal article

C2 - 29705414

VL - 101

SP - 6205

EP - 6219

JO - Journal of Dairy Science

JF - Journal of Dairy Science

SN - 0022-0302

IS - 7

ER -