Linkage disequilibrium on the bovine X chromosome: Characterization and use in quantitative trait locus mapping

Genetics

Volumn 173, Issue 3, 2006, Pages 1777-1786

  Sandor, Cynthia ^a   Farnir, Frédéric ^a   Hansoul, Sarah ^a   Coppieters, Wouter ^a   Meuwissen, Théo ^b   Georges, Michel ^a  

^a UNIVERSITY OF LIÈGE   (Belgium)

^b NORWEGIAN UNIVERSITY OF LIFE SCIENCES   (Norway)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL EXPERIMENT; ARTICLE; AUTOSOME; GENE LINKAGE DISEQUILIBRIUM; MICROSATELLITE MARKER; NONHUMAN; POPULATION SIZE; PRIORITY JOURNAL; PROBABILITY; QUANTITATIVE TRAIT LOCUS MAPPING; SEX CHROMOSOME; SEX RATIO; X CHROMOSOME;

ANIMALS; CATTLE; CHROMOSOME MAPPING; FEMALE; LINKAGE DISEQUILIBRIUM; MALE; MARKOV CHAINS; PEDIGREE; PHENOTYPE; QUANTITATIVE TRAIT LOCI; X CHROMOSOME;

BOS TAURUS; FRIESIA;

EID: 33746405730     PISSN: 00166731     EISSN: 00166731     Source Type: Journal    
DOI: 10.1534/genetics.106.059329     Document Type: Article

References (26)

1. ALTSHULER, D., L. D. BROOKS, A. CHAKRAVARTI, F. S. COLLINS, M. J. DALY et al., 2005 A haplotype map of the human genome. Nature 437: 1299-1320.
2. BLOTT, S., J. J. KIM, S. MOISIO, A. SCHMIDT-KUNTZEL, A. CORNET et al., 2003 Molecular dissection of a quantitative trait locus: a phenylalanine-to- tyrosine substitution in the transmembrane domain of the bovine growth hormone receptor is associated with a major effect on milk yield and composition. Genetics 163: 253-266.
3. BOICHARD, D., 1996 Analyse généalogique des races bovines laitières françaises. INRA Prod. Anim. 9: 323-335.
4. CABALLERO, A., 1994 Developments in the prediction of effective population size. Heredity 73: 657-679.
5. COPPIETERS, W., J. RIQUET, J.-J. ARRANZ, P. BERZI, N. CAMBISANO et al., 1998 AQTL withmajor effect onmilk yield and compositionmaps to bovine chromosome 14. Mamm. Genome 9: 540-544.
6. DIB, C., S. FAURÉ, C. FIZAMES, D. SAMSON, N. DROUOT et al., 1996 A comprehensive genetic map of the human genome based on 5,264 microsatellites. Nature 380: 152-154.
7. ELLEGREN, H., 2000 Heterogeneous mutation processes in human microsatellite DNA sequences. Nat. Genet. 24: 400-402.
8. FARNIR, F., W. COPPIETERS, J.-J. ARRANZ, P. BERZI, N. CAMBISANO et al., 2000 Extensive genome-wide linkage disequilibrium in cattle. Genome Res. 10: 220-227.
9. FARNIR, F., B. GRISART, W. COPPIETERS, J. RIQUET, P. BERZI et al., 2002 Simultaneous mining of linkage and linkage disequilibrium to fine-map QTL in outbred half-sib pedigrees: revisiting the location of a QTL with major effect on milk production on bovine chromosome 14. Genetics 161: 275-287.
10. GEORGES, M., D. NIELSEN, M. MACKINNON, A. MISHRA, R. OKIMOTO et al., 1995 Mapping quantitative trait loci controlling milk production by exploiting progeny testing. Genetics 139: 907-920.
11. GRISART, B., F. FARNIR, L. KARIM, N. CAMBISANO, J. J. KIM et al., 2004 Genetic and functional confirmation of the causality of the DGAT1 K232A quantitative trait nucleotide in affecting milk yield and composition. Proc. Natl. Acad. Sci. USA 101: 2398-2403.
12. HAYES, B. J., P. M. VISSCHER, H. C. MCPARTLAN and M. E. GODDARD, 2003 Novel multilocus measure of linkage disequilibrium to estimate past effective population size. Genome Res. 13: 635-643.
13. HIENDLEDER, S., H. THOMSEN, N. REINSCH, J. BENNEWITZ, B. LEYHE-HORN et al., 2003 Mapping of QTL for body conformation and behavior in cattle. J. Hered. 94: 496-506.
14. IHARA, N., A. TAKASUGA, K. MIZOSHITA, H. TAKEDA, M. SUGIMOTO et al., 2004 A comprehensive genetic map of the cattle genome based on 3802 microsatellites. Genome Res. 14: 1987-1998.
15. JOHNSON, D. L., and R. THOMPSON, 1995 Restricted maximum likelihood estimation of variance components for univariate animal models using sparse matrix techniques and average information. J. Dairy Sci. 78: 448-456.
16. KIM, J. J., and M. GEORGES, 2002 Evaluation of a new fine-mapping method exploiting linkage disequilibrium: a case study analysing a QTL with major effect on milk composition on bovine chromosome 14. Asian-Aust. J. Anim. Sci. 15: 1250-1256.
17. KUHN, C. H., J. BENNEWITZ, N. REINSCH, N. XU, H. THOMSEN et al., 2003 Quantitative trait loci mapping of functional traits in the German Holstein cattle population. J. Dairy Sci. 86: 360-368.
18. LYNCH, M., and B. WALSH, 1998 Genetics and Analysis of Quantitative Traits. Sinauer Associates, Sunderland, MA.
19. MEUWISSEN, T. H., and M. E. GODDARD, 2000 Fine mapping of quantitative trait loci using linkage disequilibria with closely linked marker loci. Genetics 155: 421-430.
20. MEUWISSEN, T. H., and M. E. GODDARD, 2001 Prediction of identity by descent probabilities from marker-haplotypes. Genet. Sel. Evol. 33: 605-634.
21. MEUWISSEN, T. H., B. J. HAYES and M. E. GODDARD, 2001 Prediction of total genetic value using genomewide dense marker maps. Genetics 157: 1819-1829.
22. MOUNT, D. W., 2001 Bioinformatics: Sequence and Genome Analysis. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
23. SACHIDANANDAM, R., D. WEISSMAN, S. C. SCHMIDT, J. M. KAKOL, L. D. STEIN et al., 2001 A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms. Nature 409: 928-933.
24. SCHAFFNER, S. F., 2004 The X chromosome in population genetics. Nat. Rev. Genet. 5: 43-51.
25. SONSTEGARD, T. S., W. BARENDSE, G. L. BENNETT, G. A. BROCKMANN, S. DAVIS et al., 2001 Consensus and comprehensive linkage maps of the bovine sex chromosomes. Anim. Genet. 32: 115-117.
26. WRIGHT, S., 1969 The theory of gene frequencies, p. 213 in Evolution and the Genetics of Populations, Vol. 2. University of Chicago Press, Chicago/London.