Meta-analysis of GWAS of bovine stature with >50,000 animals imputed to whole-genome sequence

A.C. Bouwman; H. Pausch; A. Govignon-Gion; C. Hoze; M.P. Sanchez; M. Boussaha; D.A. Boichard; G. Sahana; R.F. Brondum; B. Guldbrandtsen; M. Lund; J. Vilkki; M. Sargolzaei; F.S. Schenkel; J. Taylor; J.L. Hoff; R.D. Schnabel; R.F. Veerkamp; M.E. Goddard; B.J. Hayes

Meta-analysis of GWAS of bovine stature with >50,000 animals imputed to whole-genome sequence

A.C. Bouwman, H. Pausch, A. Govignon-Gion, C. Hoze, M.P. Sanchez, M. Boussaha, D.A. Boichard, G. Sahana, R.F. Brondum, B. Guldbrandtsen, M. Lund, J. Vilkki, M. Sargolzaei, F.S. Schenkel, J. Taylor, J.L. Hoff, R.D. Schnabel, R.F. Veerkamp, M.E. Goddard, B.J. Hayes

Research output: Contribution to conference › Abstract

Abstract

Extensive meta analysis of GWAS in humans has identified 697 significant SNP, however these SNP explain
only 20% the total genetic variation. In order to compare the genetic architecture of stature in humans to
stature in cattle, we performed a large meta-analysis using imputed sequence data. The 1000 Bull Genomes
project provided a multi-breed reference population of 1,147 sequenced animals to impute SNP-chip
genotypes up to whole genome sequence for 15 populations. The populations from Australia, Canada,
Denmark, Finland, France, Germany, the Netherlands, and the USA represented the Angus, Fleckvieh,
Holstein, Jersey, Montbeliarde, Normande, and Nordic Red Dairy Cattle breeds. Genome-wide association
studies were performed on stature phenotypes for each of the populations. Individual GWAS studies revealed
many QTL regions and several regions harboured good candidate genes, e.g. PLAG1, IGF2. Results from
these GWAS studies were combined in a meta-analysis to increase the power for QTL detection and to
refine QTL regions exploiting the different patterns of LD among the breeds. Results of this meta-analysis
will be validated in an independent population to determine how much of the variation in stature can be
explained by the significant SNP

Original language	English
Pages	346-346
Publication status	Published - 2015
Event	EAAP - 66th Annual Meeting 2015 - Warsaw, Poland Duration: 31 Aug 2015 → 4 Sept 2015

Conference/symposium

Conference/symposium	EAAP - 66th Annual Meeting 2015
Country/Territory	Poland
City	Warsaw
Period	31/08/15 → 4/09/15

1 Finished
1 Active

Breed4Food (WUR)
1/01/13 → …
Project: Other
AF-16022 Breed4Food II (BO-63-001-009, BO-47-001-021, BO-22.04-025-001, BO-22.04-011-001, BO-22.02-011-001)
Veerkamp, R. (Project Leader)
1/01/14 → 31/12/21
Project: LVVN project

Cite this

Bouwman, A. C., Pausch, H., Govignon-Gion, A., Hoze, C., Sanchez, M. P., Boussaha, M., Boichard, D. A., Sahana, G., Brondum, R. F., Guldbrandtsen, B., Lund, M., Vilkki, J., Sargolzaei, M., Schenkel, F. S., Taylor, J., Hoff, J. L., Schnabel, R. D., Veerkamp, R. F., Goddard, M. E., & Hayes, B. J. (2015). Meta-analysis of GWAS of bovine stature with >50,000 animals imputed to whole-genome sequence. 346-346. Abstract from EAAP - 66th Annual Meeting 2015, Warsaw, Poland.

@conference{3914437efc954848b2f821bd1f77fabb,

title = "Meta-analysis of GWAS of bovine stature with >50,000 animals imputed to whole-genome sequence",

abstract = "Extensive meta analysis of GWAS in humans has identified 697 significant SNP, however these SNP explainonly 20% the total genetic variation. In order to compare the genetic architecture of stature in humans tostature in cattle, we performed a large meta-analysis using imputed sequence data. The 1000 Bull Genomesproject provided a multi-breed reference population of 1,147 sequenced animals to impute SNP-chipgenotypes up to whole genome sequence for 15 populations. The populations from Australia, Canada,Denmark, Finland, France, Germany, the Netherlands, and the USA represented the Angus, Fleckvieh,Holstein, Jersey, Montbeliarde, Normande, and Nordic Red Dairy Cattle breeds. Genome-wide associationstudies were performed on stature phenotypes for each of the populations. Individual GWAS studies revealedmany QTL regions and several regions harboured good candidate genes, e.g. PLAG1, IGF2. Results fromthese GWAS studies were combined in a meta-analysis to increase the power for QTL detection and torefine QTL regions exploiting the different patterns of LD among the breeds. Results of this meta-analysiswill be validated in an independent population to determine how much of the variation in stature can beexplained by the significant SNP",

author = "A.C. Bouwman and H. Pausch and A. Govignon-Gion and C. Hoze and M.P. Sanchez and M. Boussaha and D.A. Boichard and G. Sahana and R.F. Brondum and B. Guldbrandtsen and M. Lund and J. Vilkki and M. Sargolzaei and F.S. Schenkel and J. Taylor and J.L. Hoff and R.D. Schnabel and R.F. Veerkamp and M.E. Goddard and B.J. Hayes",

year = "2015",

language = "English",

pages = "346--346",

note = "EAAP - 66th Annual Meeting 2015 ; Conference date: 31-08-2015 Through 04-09-2015",

}

Bouwman, AC, Pausch, H, Govignon-Gion, A, Hoze, C, Sanchez, MP, Boussaha, M, Boichard, DA, Sahana, G, Brondum, RF, Guldbrandtsen, B, Lund, M, Vilkki, J, Sargolzaei, M, Schenkel, FS, Taylor, J, Hoff, JL, Schnabel, RD, Veerkamp, RF, Goddard, ME & Hayes, BJ 2015, 'Meta-analysis of GWAS of bovine stature with >50,000 animals imputed to whole-genome sequence', EAAP - 66th Annual Meeting 2015, Warsaw, Poland, 31/08/15 - 4/09/15 pp. 346-346.

TY - CONF

T1 - Meta-analysis of GWAS of bovine stature with >50,000 animals imputed to whole-genome sequence

AU - Bouwman, A.C.

AU - Pausch, H.

AU - Govignon-Gion, A.

AU - Hoze, C.

AU - Sanchez, M.P.

AU - Boussaha, M.

AU - Boichard, D.A.

AU - Sahana, G.

AU - Brondum, R.F.

AU - Guldbrandtsen, B.

AU - Lund, M.

AU - Vilkki, J.

AU - Sargolzaei, M.

AU - Schenkel, F.S.

AU - Taylor, J.

AU - Hoff, J.L.

AU - Schnabel, R.D.

AU - Veerkamp, R.F.

AU - Goddard, M.E.

AU - Hayes, B.J.

PY - 2015

Y1 - 2015

N2 - Extensive meta analysis of GWAS in humans has identified 697 significant SNP, however these SNP explainonly 20% the total genetic variation. In order to compare the genetic architecture of stature in humans tostature in cattle, we performed a large meta-analysis using imputed sequence data. The 1000 Bull Genomesproject provided a multi-breed reference population of 1,147 sequenced animals to impute SNP-chipgenotypes up to whole genome sequence for 15 populations. The populations from Australia, Canada,Denmark, Finland, France, Germany, the Netherlands, and the USA represented the Angus, Fleckvieh,Holstein, Jersey, Montbeliarde, Normande, and Nordic Red Dairy Cattle breeds. Genome-wide associationstudies were performed on stature phenotypes for each of the populations. Individual GWAS studies revealedmany QTL regions and several regions harboured good candidate genes, e.g. PLAG1, IGF2. Results fromthese GWAS studies were combined in a meta-analysis to increase the power for QTL detection and torefine QTL regions exploiting the different patterns of LD among the breeds. Results of this meta-analysiswill be validated in an independent population to determine how much of the variation in stature can beexplained by the significant SNP

AB - Extensive meta analysis of GWAS in humans has identified 697 significant SNP, however these SNP explainonly 20% the total genetic variation. In order to compare the genetic architecture of stature in humans tostature in cattle, we performed a large meta-analysis using imputed sequence data. The 1000 Bull Genomesproject provided a multi-breed reference population of 1,147 sequenced animals to impute SNP-chipgenotypes up to whole genome sequence for 15 populations. The populations from Australia, Canada,Denmark, Finland, France, Germany, the Netherlands, and the USA represented the Angus, Fleckvieh,Holstein, Jersey, Montbeliarde, Normande, and Nordic Red Dairy Cattle breeds. Genome-wide associationstudies were performed on stature phenotypes for each of the populations. Individual GWAS studies revealedmany QTL regions and several regions harboured good candidate genes, e.g. PLAG1, IGF2. Results fromthese GWAS studies were combined in a meta-analysis to increase the power for QTL detection and torefine QTL regions exploiting the different patterns of LD among the breeds. Results of this meta-analysiswill be validated in an independent population to determine how much of the variation in stature can beexplained by the significant SNP

M3 - Abstract

SP - 346

EP - 346

T2 - EAAP - 66th Annual Meeting 2015

Y2 - 31 August 2015 through 4 September 2015

ER -

Meta-analysis of GWAS of bovine stature with >50,000 animals imputed to whole-genome sequence

Abstract

Conference/symposium

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Projects

Breed4Food (WUR)

AF-16022 Breed4Food II (BO-63-001-009, BO-47-001-021, BO-22.04-025-001, BO-22.04-011-001, BO-22.02-011-001)

Cite this