Refined positioning of a quantitative trait locus affecting somatic cell score on chromosome 18 in the German Holstein using linkage disequilibrium

Journal of Dairy Science

Volumn 92, Issue 8, 2009, Pages 4046-4054

  Baes, C ^a   Brand, B ^a   Mayer, M ^a   Kuhn C ^a   Liu, Z ^b   Reinhardt, F ^b   Reinsch, N ^a  

^a LEIBNIZ INSTITUTE FOR FARM ANIMAL BIOLOGY FBN   (Germany)

^b Vereinigte Informationssysteme Tierhaltung wV VIT   (Germany)

Author keywords

Bos taurus autosome 18; Linkage dis equilibrium; Mastitis; Somatic cell score

Indexed keywords

BOS TAURUS; BOVINAE;

EID: 68949215556     PISSN: 00220302     EISSN: 15253198     Source Type: Journal    
DOI: 10.3168/jds.2008-1742     Document Type: Article

References (36)

1. Ashwell, M. S., C. E. Rexroad Jr., R. H. Miller, P. M. VanRaden, and Y. Da. 1997. Detection of loci affecting milk production and health traits in an elite US Holstein population using microsatellite markers. Anim. Genet. 28:216-222.
2. Baes, C., and N. Reinsch. 2007. Computing the condensed conditional gametic QTL relationship matrix and its inverse. Arch. Tierzucht. 50:294-308.
3. Baes, C., and N. Reinsch. 2008. TIGER: A software system for fine- mapping quantitative trait loci. Arch. Tierzucht. 51:402-412.
4. Bennewitz, J., N. Reinsch, F. Reinhardt, Z. Liu, and E. Kalm. 2004. Top down preselection using marker assisted estimated breeding values in dairy cattle. J. Anim. Breed. Genet. 121:307-318.
5. Brink, M. 2003. Ein Beitrag zur Feinkartierung von QTL-Regionen für Eutergesundheit beim Rind. Schriftenreihe des Instituts für Tierzucht und Tierhaltung der Christian-Albrechts-Universität zu Kiel 142.
6. Calus, M. P., T. Meuwissen, A. de Roos, and R. Veerkamp. 2008. Accuracy of genomic selection using different methods to define haplotypes. Genetics 178:553-561.
7. Eßl, A. 1991. Choice of an appropriate bending factor using prior knowledge of the parameters. J. Anim. Breed. Genet. 108:89-101.
8. Gilmour, A., B. Gogel, M. Cullis, and R. Thompson. 2006. ASReml User Guide Release 2.0. VSN International Ltd., Hemel Hempstead, UK.
9. Grapes, L., M. Z. Firat, J. C. M. Dekkers, M. F. Rothschild, and R. L. Fernando. 2006. Optimal haplotype structure for linkage disequilibrium-based fine mapping of quantitative trait loci using identity by descent. Genetics 172:1955-1965.
10. Green, P., K. Falls, and S. Crooks. 1990. Documentation for CRIMAP, version 2.4. Washington University School of Medicine, St. Louis, MO.
11. Hoeschele, I., P. Uimari, F. Grignola, Q. Zhang, and K. Gage. 1997. Advances in statistical methods to map quantitative trait loci in outbred populations. Genetics 147:1445-1457.
12. Holmberg, M., and L. Andersson-Eklund. 2004. Quantitative trait loci affecting health traits in Swedish dairy cattle. J. Dairy Sci. 87:2653-2659.
13. Ihara, N., A. Takasuga, K. Mizoshita, H. Takeda, M. Sugimoto, Y. Mizoguchi, T. Hirano, T. Itoh, T. Watanabe, K. M. Reed, W. M. Snelling, S. M. Kappes, C. W. Beattie, G. L. Bennett, and Y. Sugimoto. 2004. A comprehensive genetic map of the cattle genome based on 3802 microsatellites. Genome Res. 14:1987-1998.
14. Itoh, T., T. Watanabe, N. Ihara, P. Mariani, C. W. Beattie, Y. Sugimoto, and A. Takasuga. 2005. A comprehensive radiation hybrid map of the bovine genome comprising 5593 loci. Genomics 85:413-424.
15. Khatkar, M. S., P. C. Thomson, I. Tammen, and H. W. Raadsma. 2004. Quantitative trait loci mapping in dairy cattle: Review and meta-analysis. Genet. Sel. Evol. 36:163-190.
16. Klungland, H., A. Sabryiu, B. Heringstad, H. Gro Olsen, L. Gomez- Raya, D. Inge Våge, I. Olsaker, J. Ødegård, G. Klemetsdal, N. Schulman, J. Vilkki, J. Ruane, M. Aasland, K. Rønningen, and S. Lien. 2001. Quantitative trait loci affecting clinical mastitis and somatic cell count in dairy cattle. Mammalian Genet. 12:837-842.
17. Kühn, Ch., J. Bennewitz, N. Reinsch, N. Xu, H. Thomsen, C. Looft, G. A. Brockmann, M. Schwerin, C. Weimann, S. Hiendleder, G. Erhardt, I. Medjugorac, M. Förster, B. Brenig, F. Reinhardt, R. Reents, I. Russ, G. Averdunk, J. Blümel, and E. Kalm. 2003. Quantitative trait loci mapping functional traits in the German Holstein cattle population. J. Dairy Sci. 86:360-368.
18. Kühn, Ch., F. Reinhardt, and M. Schwerin. 2008. Marker assisted selection of heifers improved milk somatic cell count compared to selection on conventional pedigree breeding values. Arch. Tierzucht. 51:23-32.
19. Lander, E., and D. Botstein. 1989. Mapping Mendelian factors underlying quantitative traits using RFLP linkage maps. Genetics 121:185-199.
20. Liu, Z., F. Reinhardt, A. Bünger, and R. Reents. 2004. Derivation and calculation of approximate reliabilities and daughter yield- deviations of a random regression test-day model for genetic evaluation of dairy cattle. J. Dairy Sci. 87:1896-1907.
21. Lund, M. S., G. Sahana, L. Andersson-Eklund, N. Hastings, A. Fernandez, N. Schulman, B. Thomsen, S. Viitala, J. L. Williams, A. Sabry, H. Viinalass, and J. Vilkki. 2007. Joint analysis of quantitative trait loci for clinical mastitis and somatic cell score on five chromosomes in three Nordic dairy cattle breeds. J. Dairy Sci. 90:5282-5290.
22. Mangin, B., B. Goffinet, and A. Rebaï. 1994. Constructing confidence intervals for QTL location. Genetics 138:1301-1308.
23. Meuwissen, T., A. Karlsen, S. Lien, I. Olsaker, and M. Goddard. 2002. Fine mapping of a quantitative trait locus for twinning rate using combined linkage and linkage disequilibrium mapping. Genetics 161:373-379.
24. Muncie, S. A., J. P. Cassady, and M. S. Ashwell. 2006. Refinement of quantitative trait loci on bovine chromosome 18 affecting health and reproduction in US Holsteins. Anim. Genet. 37:273-275.
25. Ott, J. 1991. Analysis of Human Linkage. John Hopkins University Press, Baltimore MD.
26. Reinsch, N. 1999. A multiple-species, multiple-project database for genotypes at codominant loci. J. Anim. Breed. Genet. 116:425-435.
27. Rodriguez-Zas, S., B. Southey, D. Heyen, and H. Lewin. 2002. Interval and composite interval mapping of somatic cell score, yield, and components of milk in dairy cattle. J. Dairy Sci. 85:3081-3091.
28. Rupp, R., and D. Boichard. 2003. Genetics of resistance to mastitis in dairy cattle. Vet. Res. 34:671-688.
29. Schrooten, C., H. Bovenhuis, W. Coppieters, and J. A. M. van Arendonk. 2000. Whole genome scan to detect quantitative trait loci for conformation and functional traits in dairy cattle. J. Dairy Sci. 83:795-806.
30. Schulman, N., S. Viitala, D. de Koning, J. Virta, A. Mäki-Tanila, and J. Vilkki. 2004. Quantitative trait loci for health traits in Finnish Ayrshire cattle. J. Dairy Sci. 87:443-449.
31. Seegers, H., C. Fourichon, and F. Beaudeau. 2003. Production effects related to mastitis and mastitis economincs in dairy cattle herds. Vet. Res. 34:475-491.
32. Seyfert, H. M., and Ch. Kühn. 1994. Characterization of a first bovine lactoferrin gene variant based on an EcoRI polymorphism. Anim. Genet. 25:54.
33. Snelling, W. M., E. Casas, R. T. Stone, J. W. Keele, G. P. Harhay, G. L. Bennett, and T. P. L. Smith. 2005. Linkage mapping bovine EST-based SNP. BMC Genomics 6:74.
34. Tuchscherer, A., M. Mayer, and N. Reinsch. 2004. Identification of gametes and treatment of linear dependencies in the gametic QTL- relationship matrix and its inverse. Genet. Sel. Evol. 36:621-642.
35. Xu, N., S. Paul, J. Bennewitz, N. Reinsch, G. Thaller, F. Reinhardt, Ch. Kühn, M. Schwerin, G. Erhardt, C. Weimann, H. Thomsen, S. Mishra, and E. Kalm. 2006. Confirmation of quantitative trait loci for somatic cell score on bovine chromosome 18 in the German Holstein. Arch. Tierzucht 49:111-119.
36. Xu, S., and W. Atchley. 1995. A random model approach to interval mapping of quantitative genes. Genetics 141:1189-1197.