Genome-wide search for markers associated with osteochondrosis in Hanoverian warmblood horses

Dierks, Claudia; Löhring, Kathrin; Lampe, V.; Wittwer, Catherine; Drögemüller, Cord; Distl, O.

doi:10.1007/s00335-007-9058-9

Cited by 36 publications

(43 citation statements)

References 24 publications

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“…Early studies using primarily linkage based analyses (dependent on family data), to detect regions of the genome associated with OC in the horse have identified several putative quantitative trait loci (QTL) (Dierks et al 2007;Wittwer et al 2007b). As is typical for QTL 6 discovered using this approach, their effects are generally large but their locations are imprecise.…”

Section: Introductionmentioning

confidence: 99%

A genome-wide association study of osteochondritis dissecans in the Thoroughbred

et al. 2011

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Section: Introductionmentioning

confidence: 99%

A genome-wide association study of osteochondritis dissecans in the Thoroughbred

et al. 2011

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“…Negative genetic correlations have been determined between some of the most prevalent radiographic findings in the limbs of young Warmblood riding horses, requiring their joint consideration in a breeding scheme, which aims to lower their prevalences Distl, 2005a and2005b). Recent molecular genetic studies in different animal species increase the opportunity for implementation of MAS utilising radiological parameters in the near future (Kadarmideen and Janss, 2005;Dierks et al, 2007).…”

Section: Introductionmentioning

confidence: 99%

Bayesian prediction of breeding values for multivariate binary and continuous traits in simulated horse populations using threshold–linear models with Gibbs sampling

Stock

Distl

Hoeschele

2008

Animal

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Simulated data were used to determine the properties of multivariate prediction of breeding values for categorical and continuous traits using phenotypic, molecular genetic and pedigree information by mixed linear-threshold animal models via Gibbs sampling. Simulation parameters were chosen such that the data resembled situations encountered in Warmblood horse populations. Genetic evaluation was performed in the context of the radiographic findings in the equine limbs. The simulated pedigree comprised seven generations and 40 000 animals per generation. The simulated data included additive genetic values, residuals and fixed effects for one continuous trait and liabilities of four binary traits. For one of the binary traits, quantitative trait locus (QTL) effects and genetic markers were simulated, with three different scenarios with respect to recombination rate (r) between genetic markers and QTL and polymorphism information content (PIC) of genetic markers being studied: r 5 0.00 and PIC 5 0.90 (r0p9), r 5 0.01 and PIC 5 0.90 (r1p9), and r 5 0.00 and PIC 5 0.70 (r0p7). For each scenario, 10 replicates were sampled from the simulated horse population, and six different data sets were generated per replicate. Data sets differed in number and distribution of animals with trait records and the availability of genetic marker information. Breeding values were predicted via Gibbs sampling using a Bayesian mixed linear-threshold animal model with residual covariances fixed to zero and a proper prior for the genetic covariance matrix. Relative breeding values were used to investigate expected response to multiand single-trait selection. In the sires with 10 or more offspring with trait information, correlations between true and predicted breeding values ranged between 0.89 and 0.94 for the continuous traits and between 0.39 and 0.77 for the binary traits. Proportions of successful identification of sires of average, favourable and unfavourable genetic value were 81% to 86% for the continuous trait and 57% to 74% for the binary traits in these sires. Expected decrease of prevalence of the QTL trait was 3% to 12% after multi-trait selection for all binary traits and 9% to 17% after single-trait selection for the QTL trait. The combined use of phenotype and genotype data was superior to the use of phenotype data alone. It was concluded that information on phenotypes and highly informative genetic markers should be used for prediction of breeding values in mixed linear-threshold animal models via Gibbs sampling to achieve maximum reduction in prevalences of binary traits.

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“…The corresponding maximum (minimum) values for LOD scores were 3.87 (20.37) and 2.56 (20.25) indicating enough power to detect genome-wide significant linkage. Chromosome-wide error probabilities were obtained as described in Dierks et al (2007). Genome-wide probabilities were calculated by applying a Bonferroni correction: P genome-wide 5 1 2 (1 2 P chromosome-wide ) 1/r , where r 5 length of the respective equine chromosome in Mb, which is 87.4 Mb according to the horse genome assembly EquCab2.0, divided by the total equine genome length (2680 Mb).…”

Section: Discussionmentioning

confidence: 99%

“…Whole genome scans in Hanoverian warmblood and South German coldblood horses revealed quantitative trait loci (QTL) for OC (Dierks et al, 2007;Wittwer et al, 2007b). The traits analyzed were OC (fetlock and/or hock joints affected), OCD (fetlock and/or hock joints affected), fetlock OC, fetlock OCD, hock OC and hock OCD.…”

Section: Introductionmentioning

confidence: 99%

Refinement of a quantitative gene locus on equine chromosome 16 responsible for osteochondrosis in Hanoverian warmblood horses

Lampe¹,

Dierks²,

Distl³

2009

Animal

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Osteochondrosis (OC) is an inherited developmental disease in young horses most frequently observed in thoroughbreds, trotters, warmblood and coldblood horses. Quantitative trait loci (QTL) for equine OC have been identified in Hanoverian warmblood horses employing a whole genome scan with microsatellites. A QTL on ECA16 reached the genome-wide significance level for hock osteochondrosis dissecans (OCD). The aim of this study was to refine this QTL on ECA16 using an extended marker set of 34 newly developed microsatellites and 15 single nucleotide polymorphisms (SNPs). We used the same 14 paternal half-sib groups as in the above-mentioned whole genome scan. The QTL for OCD in hock joints on ECA16 could be delimited at an interval between 17.60 and 45.18 Mb using multipoint non-parametric linkage analyses. In addition, six microsatellites and one SNP were significantly associated with hock OCD in the QTL region between 24.26 and 42.41 Mb. Furthermore, our analysis revealed a second QTL for fetlock OC between 6.55 and 24.26 Mb on ECA16. This report is a further step towards unravelling the genes underlying QTL for equine OC and towards the development of a marker test for OC in Hanoverian warmblood horses.

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Genome-wide search for markers associated with osteochondrosis in Hanoverian warmblood horses

Cited by 36 publications

References 24 publications

A genome-wide association study of osteochondritis dissecans in the Thoroughbred

A genome-wide association study of osteochondritis dissecans in the Thoroughbred

Bayesian prediction of breeding values for multivariate binary and continuous traits in simulated horse populations using threshold–linear models with Gibbs sampling

Refinement of a quantitative gene locus on equine chromosome 16 responsible for osteochondrosis in Hanoverian warmblood horses

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