A single nucleotide polymorphism set for paternal identification to reduce the costs of trait recording in commercial pig breeding

Journal of Animal Science

Volumn 89, Issue 6, 2011, Pages 1661-1668

  Harlizius, B ^a   Lopes, M S ^b   Duijvesteijn, N ^a   van de Goor, L H P ^c   van Haeringen, W A ^c   Panneman, H ^c   Guimaraes S E F ^b   Merks, J W M ^a   Knol, E F ^a  

^a Institute for Pig Genetics BV (IPG)   (Netherlands)

^b FEDERAL UNIVERSITY OF VIÇOSA   (Brazil)

^c WAGENINGEN UNIVERSITY   (Netherlands)

Author keywords

Disease; Mortality; Parental identification; Pig; Single nucleotide polymorphism

Indexed keywords

ANIMAL; ARTICLE; FEMALE; GENETIC MARKER; GENETICS; GENOTYPE; MALE; PEDIGREE; SINGLE NUCLEOTIDE POLYMORPHISM; SWINE;

ANIMALS; FEMALE; GENETIC MARKERS; GENOTYPE; MALE; PEDIGREE; POLYMORPHISM, SINGLE NUCLEOTIDE; SWINE;

ANIMALIA; SUIDAE;

EID: 80052689338     PISSN: 00218812     EISSN: 15253163     Source Type: Journal    
DOI: 10.2527/jas.2010-3347     Document Type: Article

References (19)

1. Ballester, M., A. Mercadé, B. van Haandel, J. Santamartina, and A. Sánchez. 2007. Individual identification and genetic traceability in the pig using the SNPlexTM genotyping system. Anim. Genet. 37:1-3
2. Duijvesteijn, N., E.F. Knol, J.W.M. Merks, R.P.M.A. Crooijmans, M.A.M. Groenen, H. Bovenhuis, and B. Harlizius. 2010. A genome-wide association study on androstenone levels in pigs reveals a cluster of candidate genes on chromosome 6. BMC Genet. 11:42.
3. Fisher, P. J., B. Malthus, M. C. Walker, G. Corbett, and R. J. Spelman. 2009. The number of single nucleotide polymorphisms and on-farm data required for whole-herd parentage testing in dairy cattle herds. J. Dairy Sci. 92:369-374
4. Goffaux, F., B. China, L. Dams, A. Clinquart, and G. Daube. 2005. Development of a genetic traceability test in pig based on single nucleotide polymorphism detection. Forensic Sci. Int. 151:239-247
5. Gomez-Raya, L., K. Priest, W. M. Rauw, M. Okomo-Adhiambo, D. Thain, R. Bruce, A. Rink, R. Torell, L. Grellman, R. Narayanan, and C. W. Beattie. 2008. The value of DNA paternity identification in beef cattle: Examples from Nevada's free range ranches. J. Anim. Sci. 86:17-24
6. Hara, K., H. Watanabe, S. Sasazaki, F. Mukai, and H. Mannen. 2010. Development of SNP markers for individual identification and parentage test in a Japanese Black cattle population. Anim. Sci. J. 81:152-157
7. Hayes, B., A. K. Sonesson, and B. Gjerde. 2005. Evaluation of three strategies using DNA markers for traceability in aquaculture species. Aquaculture 250:70-81
8. Heaton, M. P., G. P. Harhay, G. L. Bennett, R. T. Stone, W. M. Grosse, E. Casas, J. W. Keele, T. P. L. Smith, C. G. Chitko-McKown, and W. W. Laegreid. 2002. Selection and use of SNP markers for animal identification and paternity analysis in U.S. beef cattle. Mamm. Genome 13:272-281
9. Hill, W. G., B. A. Salisbury, and J. A. Webb. 2008. Parentage identification using single nucleotide polymorphism genotypes: Application to product tracing. J. Anim. Sci. 86:2508-2517
10. Jamieson, A., and S. C. Taylor. 1997. Comparisons of three probability formulae for parentage exclusion. Anim. Genet. 28:397-400
11. Kalinowski, S. T., M. L. Taper, and T. C. Marshall. 2007. Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment. Mol. Ecol. 16:1099-1106
12. Long, T. E., R. K. Johnson, and J. W. Keele. 1990. Effects of errors in pedigree on three methods of estimating breeding value for litter size, backfat and average daily gain in swine. J. Anim. Sci. 68:4069-4078
13. Marshall, T. C., J. Slate, L. E. B. Kruuk, and J. M. Pemberton. 1998. Statistical confidence for Likelihood-based paternity inference in natural populations. Mol. Ecol. 7:639-655
14. Ramos, A. M., R. P. M. A. Crooijmans, N. A. Affara, A. J. Amaral, A. L. Archibald, J. E. Beever, C. Bendixen, C. Churcher, R. Clark, P. Dehais, M. S. Hansen, J. Hedegaard, Z.-L. Hu, H. H. Kerstens, A. S. Law, H.-J. Megens, D. Milan, D. J. Nonneman, G. A. Rohrer, M. F. Rothschild, T. P. L. Smith, R. D. Schnabel, C. P. Van Tassell, J. F. Taylor, R. T. Wiedmann, L. B. Schook, and M. A. M. Groenen. 2009. Design of a high density SNP genotyping assay in the pig using SNPs identified and characterized by next generation sequencing technology. PLoS ONE 4:e6524.
15. Rohrer, G. A., B. A. Freking, and D. Nonneman. 2007. Single nucleotide polymorphisms for pig identification and parentage exclusion. Anim. Genet. 38:253-258
16. Senneke, S. L., M. D. MacNeil, and L. D. Van Vleck. 2004. Effects of sire misidentification on estimates of genetic parameters for birth and weaning weights in Hereford cattle. J. Anim. Sci. 82:2307-2312
17. Sherman, G. B., S. D. Kachman, L. L. Hungerford, G. P. Rupp, C. P. Fox, M. D. Brown, B. M. Feuz, and T. R. Holm. 2004. Impact of candidate sire number and sire relatedness on DNA polymorphism-based measures of exclusion probability and probability of unambiguous parentage. Anim. Genet. 35:220-226
18. Van Eenennaam, A. L., R. L. Weaber, D. J. Drake, M. C. T. Penedo, R. L. Quaas, and E. J. Pollak. 2007. DNA-based paternity analysis and genetic evaluation in a large, commercial cattle ranch setting. J. Anim. Sci. 85:3159-3169
19. Visscher, P. M., J. A. Woolliams, D. Smith, and J. L. Williams. 2002. Estimation of pedigree errors in the UK dairy population using microsatellite markers and the impact on selection. J. Dairy Sci. 85:2368-2375.