Confirmation and discovery of maternal grandsires and great-grandsires in dairy cattle

Journal of Dairy Science

Volumn 96, Issue 3, 2013, Pages 1874-1879

  VanRaden, P M ^a   Cooper, T A ^a   Wiggans, G R ^a   O'Connell, J R ^b   Bacheller, L R ^a  

^a AGRICULTURAL RESEARCH SERVICE   (United States)

^b UNIVERSITY OF MARYLAND SCHOOL OF MEDICINE   (United States)

Author keywords

Genomics; Haplotype; Pedigree discovery; Pedigree reconstruction

Indexed keywords

ANIMAL; ARTICLE; BREEDING; CATTLE; DAIRYING; FEMALE; GENETICS; GENOTYPE; HAPLOTYPE; MALE; METHODOLOGY; PEDIGREE; SINGLE NUCLEOTIDE POLYMORPHISM;

ANIMALS; BREEDING; CATTLE; DAIRYING; FEMALE; GENOTYPE; HAPLOTYPES; MALE; PEDIGREE; POLYMORPHISM, SINGLE NUCLEOTIDE;

ANIMALIA; BOS;

EID: 84874339407     PISSN: 00220302     EISSN: 15253198     Source Type: Journal    
DOI: 10.3168/jds.2012-6176     Document Type: Article

References (25)

1. Ahlstrom, D. 2012. Discover your genetic ancestors. The Irish Times, May 3, 2012. Accessed Sept. 12, 2012. http://www.irishtimes.com/newspaper/sciencetoday/2012/0503/1224315503586.html.
2. Anderson E.C., Garza J.C. The power of single-nucleotide polymorphisms for large-scale parentage inference. Genetics 2006, 172:2567-2582.
3. Banos G., Wiggans G.R., Powell R.L. Impact of paternity errors in cow identification on genetic evaluations and international comparisons. J. Dairy Sci. 2001, 84:2523-2529.
4. Cowell R.G. Efficient maximum likelihood pedigree reconstruction. Theor. Popul. Biol. 2009, 76:285-291.
5. Dechow C.D., Norman H.D., Zwald N.R., Cowan C.M., Meland O.M. Relationship between individual herd-heritability estimates and sire misidentification rate. J. Dairy Sci. 2008, 91:1640-1647.
6. Dodds K., Tate M., Sise J. Genetic evaluation using parentage information from genetic markers. J. Anim. Sci. 2005, 83:2271-2279.
7. El-Kassaby Y.A., Lstibůrek M. Breeding without breeding. Genet. Res. (Camb.) 2009, 91:111-120.
8. Fisher P.J., Malthus B., Walker M.C., Corbett G., Spelman R.J. The number of single nucleotide polymorphisms and on-farm data required for whole-herd parentage testing in dairy cattle herds. J. Dairy Sci. 2009, 92:369-374.
9. Gorbach D.M., Makgahlela M.L., Reecy J.M., Kemp S.J., Baltenweck I., Ouma R., Mwai O., Marshall K., Murdoch B., Moore S., Rothschild M.F. Use of SNP genotyping to determine pedigree and breed composition of dairy cattle in Kenya. J. Anim. Breed. Genet. 2010, 127:348-351.
10. Gusev A., Lowe J.K., Stoffel M., Daly M.J., Altshuler D., Breslow J.L., Friedman J.M., Pe'er I. Whole population, genome-wide mapping of hidden relatedness. Genome Res. 2009, 19:318-326.
11. Hayes B.J. Efficient parentage assignment and pedigree reconstruction with dense single nucleotide polymorphism data. J. Dairy Sci. 2011, 94:2114-2117.
12. Heaton M.P., Harhay G.P., Bennett G.L., Stone R.T., Grosse W.M., Casas E., Keele J.W., Smith T.P., Chitko-McKown C.G., Laegreid W.W. Selection and use of SNP markers for animal identification and paternity analysis in U.S. beef cattle. Mamm. Genome 2002, 13:272-281.
13. Heyen D.W., Beever J.E., Da Y., Evert R.E., Green C., Bates S.R.E., Ziegle J.S., Lewin H.A. Exclusion probabilities of 22 bovine microsatellite markers in fluorescent multiplexes for semiautomated parentage testing. Anim. Genet. 1997, 28:21-27.
14. Hill W.G., Salisbury B.A., Webb A.J. Parentage identification using single nucleotide polymorphism genotypes: Application to product tracing. J. Anim. Sci. 2008, 86:2508-2517.
15. Illumina. 2011a. BovineSNP50 Genotyping BeadChip. Accessed Aug. 3, 2011. http://www.illumina.com/Documents/products/datasheets/datasheet_bovine_snp5O.pdf.
16. Illumina. 2011b. GoldenGate Bovine3K Genotyping BeadChip. Accessed Aug. 3, 2011. http://www.illumina.com/Documents/products/datasheets/datasheet_bovine3K.pdf.
17. International Committee on Animal Recording. 2012. ICAR rules and guidelines for parentage testing in cattle. Accessed Sept. 4, 2012. http://www.icar.org/Documents/Rules%20and%20regulations/Amendments%202012/Parentage%20Testing%20in%20Cattle.pdf.
18. Kirkpatrick B., Li S.C., Karp R.M., Halperin E. Pedigree reconstruction using identity by descent. Lecture Notes in Computer Science 2011, 6577:136-152.
19. McClure M., Sonstegard T., Wiggans G., Van Tassell C.P. Imputation of microsatellite alleles from dense SNP genotypes for parental verification. Front. Genet. 2012, 3:140.
20. Pemberton J.M. Wild pedigrees: The way forward. Proc. Biol. Sci. 2008, 275:613-621.
21. Stormont C., Owen R.D., Irwin M.R. The B and C systems of bovine blood groups. Genetics 1951, 36:134-161.
22. VanRaden P.M., O'Connell J.R., Wiggans G.R., Weigel K.A. Genomic evaluations with many more genotypes. Genet. Sel. Evol. 2011, 43:10.
23. Visscher P.M., Woolliams J.A., Smith D., Williams J.L. Estimation of pedigree errors in the UK dairy population using microsatellite markers and the impact on selection. J. Dairy Sci. 2002, 85:2368-2375.
24. Wiggans G.R., Cooper T.A., VanRaden P.M., Olson K.M., Tooker M.E. Use of the Illumina Bovine3K BeadChip in dairy genomic evaluation. J. Dairy Sci. 2012, 95:1552-1558.
25. Wiggans G.R., Sonstegard T.S., VanRaden P.M., Matukumalli L.K., Schnabel R.D., Taylor J.F., Schenkel F.S., Van Tassell C.P. Selection of single-nucleotide polymorphisms and quality of genotypes used in genomic evaluation of dairy cattle in the United States and Canada. J. Dairy Sci. 2009, 92:3431-3436.