Canine hip dysplasia is predictable by genotyping

G. Guo, Z. Zhou, Y. Wang, K. Zhao, L. Zhu, G. Lust, L. Hunter, S. Friedenberg, J. Li, Y. Zhang, S. Harris, P. Jones, J. Sandler, U. Krotscheck, R. Todhunter, Z. Zhang

Research output: Contribution to journalArticle

19 Citations (Scopus)

Abstract

Objective: To establish a predictive method using whole genome genotyping for early intervention in canine hip dysplasia (CHD) risk management, for the prevention of the progression of secondary osteoarthritis (OA), and for selective breeding. Design: Two sets of dogs (six breeds) were genotyped with dense SNPs covering the entire canine genome. The first set contained 359 dogs upon which a predictive formula for genomic breeding value (GBV) was derived by using their estimated breeding value (EBV) of the Norberg angle (a measure of CHD) and their genotypes. To investigate how well the formula would work for an individual dog with genotype only (without using EBV), a cross validation was performed by masking the EBV of one dog at a time. The genomic data and the EBV of the remaining dogs were used to predict the GBV for the single dog that was left out. The second set of dogs included 38 new Labrador retriever dogs, which had no pedigree relationship to the dogs in the first set. Results: The cross validation showed a strong correlation (R> 0.7) between the EBV and the GBV. The independent validation showed a moderate correlation (R= 0.5) between GBV for the Norberg angle and the observed Norberg angle (no EBV was available for the new 38 dogs). Sensitivity, specificity, positive and negative predictive values of the genomic data were all above 70%. Conclusions: Prediction of CHD from genomic data is feasible, and can be applied for risk management of CHD and early selection for genetic improvement to reduce the prevalence of CHD in breeding programs. The prediction can be implemented before maturity, at which age current radiographic screening programs are traditionally applied, and as soon as DNA is available.

Original languageEnglish (US)
Pages (from-to)420-429
Number of pages10
JournalOsteoarthritis and Cartilage
Volume19
Issue number4
DOIs
StatePublished - Apr 1 2011

Fingerprint

Canine Hip Dysplasia
Risk management
Breeding
Genes
Dogs
Screening
DNA
Risk Management
Genotype
Genome
Newfoundland and Labrador
Pedigree
Secondary Prevention
Osteoarthritis

Keywords

  • Breeding value
  • Canine hip dysplasia
  • GWAS
  • Genomic prediction
  • QTL

Cite this

Guo, G., Zhou, Z., Wang, Y., Zhao, K., Zhu, L., Lust, G., ... Zhang, Z. (2011). Canine hip dysplasia is predictable by genotyping. Osteoarthritis and Cartilage, 19(4), 420-429. https://doi.org/10.1016/j.joca.2010.12.011

Canine hip dysplasia is predictable by genotyping. / Guo, G.; Zhou, Z.; Wang, Y.; Zhao, K.; Zhu, L.; Lust, G.; Hunter, L.; Friedenberg, S.; Li, J.; Zhang, Y.; Harris, S.; Jones, P.; Sandler, J.; Krotscheck, U.; Todhunter, R.; Zhang, Z.

In: Osteoarthritis and Cartilage, Vol. 19, No. 4, 01.04.2011, p. 420-429.

Research output: Contribution to journalArticle

Guo, G, Zhou, Z, Wang, Y, Zhao, K, Zhu, L, Lust, G, Hunter, L, Friedenberg, S, Li, J, Zhang, Y, Harris, S, Jones, P, Sandler, J, Krotscheck, U, Todhunter, R & Zhang, Z 2011, 'Canine hip dysplasia is predictable by genotyping', Osteoarthritis and Cartilage, vol. 19, no. 4, pp. 420-429. https://doi.org/10.1016/j.joca.2010.12.011
Guo G, Zhou Z, Wang Y, Zhao K, Zhu L, Lust G et al. Canine hip dysplasia is predictable by genotyping. Osteoarthritis and Cartilage. 2011 Apr 1;19(4):420-429. https://doi.org/10.1016/j.joca.2010.12.011
Guo, G. ; Zhou, Z. ; Wang, Y. ; Zhao, K. ; Zhu, L. ; Lust, G. ; Hunter, L. ; Friedenberg, S. ; Li, J. ; Zhang, Y. ; Harris, S. ; Jones, P. ; Sandler, J. ; Krotscheck, U. ; Todhunter, R. ; Zhang, Z. / Canine hip dysplasia is predictable by genotyping. In: Osteoarthritis and Cartilage. 2011 ; Vol. 19, No. 4. pp. 420-429.
@article{6f1649f06d43434493310ff776fccb1e,
title = "Canine hip dysplasia is predictable by genotyping",
abstract = "Objective: To establish a predictive method using whole genome genotyping for early intervention in canine hip dysplasia (CHD) risk management, for the prevention of the progression of secondary osteoarthritis (OA), and for selective breeding. Design: Two sets of dogs (six breeds) were genotyped with dense SNPs covering the entire canine genome. The first set contained 359 dogs upon which a predictive formula for genomic breeding value (GBV) was derived by using their estimated breeding value (EBV) of the Norberg angle (a measure of CHD) and their genotypes. To investigate how well the formula would work for an individual dog with genotype only (without using EBV), a cross validation was performed by masking the EBV of one dog at a time. The genomic data and the EBV of the remaining dogs were used to predict the GBV for the single dog that was left out. The second set of dogs included 38 new Labrador retriever dogs, which had no pedigree relationship to the dogs in the first set. Results: The cross validation showed a strong correlation (R> 0.7) between the EBV and the GBV. The independent validation showed a moderate correlation (R= 0.5) between GBV for the Norberg angle and the observed Norberg angle (no EBV was available for the new 38 dogs). Sensitivity, specificity, positive and negative predictive values of the genomic data were all above 70{\%}. Conclusions: Prediction of CHD from genomic data is feasible, and can be applied for risk management of CHD and early selection for genetic improvement to reduce the prevalence of CHD in breeding programs. The prediction can be implemented before maturity, at which age current radiographic screening programs are traditionally applied, and as soon as DNA is available.",
keywords = "Breeding value, Canine hip dysplasia, GWAS, Genomic prediction, QTL",
author = "G. Guo and Z. Zhou and Y. Wang and K. Zhao and L. Zhu and G. Lust and L. Hunter and S. Friedenberg and J. Li and Y. Zhang and S. Harris and P. Jones and J. Sandler and U. Krotscheck and R. Todhunter and Z. Zhang",
year = "2011",
month = "4",
day = "1",
doi = "10.1016/j.joca.2010.12.011",
language = "English (US)",
volume = "19",
pages = "420--429",
journal = "Osteoarthritis and Cartilage",
issn = "1063-4584",
publisher = "W.B. Saunders Ltd",
number = "4",

}

TY - JOUR

T1 - Canine hip dysplasia is predictable by genotyping

AU - Guo, G.

AU - Zhou, Z.

AU - Wang, Y.

AU - Zhao, K.

AU - Zhu, L.

AU - Lust, G.

AU - Hunter, L.

AU - Friedenberg, S.

AU - Li, J.

AU - Zhang, Y.

AU - Harris, S.

AU - Jones, P.

AU - Sandler, J.

AU - Krotscheck, U.

AU - Todhunter, R.

AU - Zhang, Z.

PY - 2011/4/1

Y1 - 2011/4/1

N2 - Objective: To establish a predictive method using whole genome genotyping for early intervention in canine hip dysplasia (CHD) risk management, for the prevention of the progression of secondary osteoarthritis (OA), and for selective breeding. Design: Two sets of dogs (six breeds) were genotyped with dense SNPs covering the entire canine genome. The first set contained 359 dogs upon which a predictive formula for genomic breeding value (GBV) was derived by using their estimated breeding value (EBV) of the Norberg angle (a measure of CHD) and their genotypes. To investigate how well the formula would work for an individual dog with genotype only (without using EBV), a cross validation was performed by masking the EBV of one dog at a time. The genomic data and the EBV of the remaining dogs were used to predict the GBV for the single dog that was left out. The second set of dogs included 38 new Labrador retriever dogs, which had no pedigree relationship to the dogs in the first set. Results: The cross validation showed a strong correlation (R> 0.7) between the EBV and the GBV. The independent validation showed a moderate correlation (R= 0.5) between GBV for the Norberg angle and the observed Norberg angle (no EBV was available for the new 38 dogs). Sensitivity, specificity, positive and negative predictive values of the genomic data were all above 70%. Conclusions: Prediction of CHD from genomic data is feasible, and can be applied for risk management of CHD and early selection for genetic improvement to reduce the prevalence of CHD in breeding programs. The prediction can be implemented before maturity, at which age current radiographic screening programs are traditionally applied, and as soon as DNA is available.

AB - Objective: To establish a predictive method using whole genome genotyping for early intervention in canine hip dysplasia (CHD) risk management, for the prevention of the progression of secondary osteoarthritis (OA), and for selective breeding. Design: Two sets of dogs (six breeds) were genotyped with dense SNPs covering the entire canine genome. The first set contained 359 dogs upon which a predictive formula for genomic breeding value (GBV) was derived by using their estimated breeding value (EBV) of the Norberg angle (a measure of CHD) and their genotypes. To investigate how well the formula would work for an individual dog with genotype only (without using EBV), a cross validation was performed by masking the EBV of one dog at a time. The genomic data and the EBV of the remaining dogs were used to predict the GBV for the single dog that was left out. The second set of dogs included 38 new Labrador retriever dogs, which had no pedigree relationship to the dogs in the first set. Results: The cross validation showed a strong correlation (R> 0.7) between the EBV and the GBV. The independent validation showed a moderate correlation (R= 0.5) between GBV for the Norberg angle and the observed Norberg angle (no EBV was available for the new 38 dogs). Sensitivity, specificity, positive and negative predictive values of the genomic data were all above 70%. Conclusions: Prediction of CHD from genomic data is feasible, and can be applied for risk management of CHD and early selection for genetic improvement to reduce the prevalence of CHD in breeding programs. The prediction can be implemented before maturity, at which age current radiographic screening programs are traditionally applied, and as soon as DNA is available.

KW - Breeding value

KW - Canine hip dysplasia

KW - GWAS

KW - Genomic prediction

KW - QTL

UR - http://www.scopus.com/inward/record.url?scp=79952819264&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=79952819264&partnerID=8YFLogxK

U2 - 10.1016/j.joca.2010.12.011

DO - 10.1016/j.joca.2010.12.011

M3 - Article

VL - 19

SP - 420

EP - 429

JO - Osteoarthritis and Cartilage

JF - Osteoarthritis and Cartilage

SN - 1063-4584

IS - 4

ER -