Methods for the detection of multiple linked QTL applied to a mixture of full and half sib families

Genetics Selection Evolution

Volumn 39, Issue 2, 2007, Pages 139-158

  Gilbert, Hélène ^a   Le Roy, Pascale ^b  

^a CEMAGREF   (France)

^b AGROCAMPUS OUEST   (France)

Author keywords

Linked QTL; Multiple trait; QTL detection; Sib families; Simulations

Indexed keywords

DETECTION METHOD; DISCRIMINANT ANALYSIS; GENETIC MARKER;

ANIMAL; ARTICLE; GENETIC LINKAGE; GENETICS; HAPLOTYPE; OUTBRED STRAIN; QUANTITATIVE TRAIT LOCUS; SIBLING; TIME;

ANIMALS; ANIMALS, OUTBRED STRAINS; HAPLOTYPES; LINKAGE (GENETICS); QUANTITATIVE TRAIT LOCI; SIBLINGS; TIME FACTORS;

EID: 34247506373     PISSN: 0999193X     EISSN: 12979686     Source Type: Journal    
DOI: 10.1051/gse:2006039     Document Type: Article

References (36)

1. Almasy L., Blangero J., Multipoint quantitative-trait linkage analysis in general pedigrees, Am. J. Hum. Genet. 62 (1998) 1198-1211.
2. Andersson L., Haley C.S., Ellegren H., Knott S.A., Johansson M., Andersson K., Andersson-Eklund L., Edfors-Lilja I., Fredholm M., Hansson I., Hȧkanson J., Lundstróm K., Genetic mapping of quantitative trait loci for growth and fatness in pigs, Science 263 (1994) 1771-1774.
3. Bidanel J.P., Milan D., Iannuccelli N., Amigues Y., Boscher M.Y., Bourgeois F., Caritez J.C., Gruand J., Le Roy P., Lagant H., Quintanilla R., Renard C., Gellin J., Ollivier L., Chevalet C., Detection of quantitative trait loci for growth and fatness in pigs, Genet. Sel. Evol. 33 (2001) 289-309.
4. Carlborg O., Andersson L., Kinghorn B., The use of a genetic algorithm for simultaneous mapping of multiple interacting quantitative trait loci, Genetics 155 (2000) 2003-2010.
5. Elsen J.M., Mangin B., Goffinet B., Boichard D., Le Roy P., Alternative models for QTL detection in livestock. I. General introduction, Genet. Sel. Evol. 31 (1999) 213-224.
6. Gilbert H., Le Roy P., Comparison of three multitrait methods for QTL detection, Genet. Sel. Evol. 35 (2003) 281-304.
7. Gilbert H., Le Roy P., Power of three multitrait methods for QTL detection in crossbred populations, Genet. Sel. Evol. 36 (2004) 347-361.
8. Gilbert H., Le Roy P., Milan D., Bidanel J.P., Linked and pleiotropic QTL influencing carcass composition traits detected on the porcine chromosome 7, Genet. Res. (2007), to appear.
9. Goffinet B., Mangin B., Comparing methods to detect more than one QTL on a chromosome, Theor. Appl. Genet. 96 (1998) 628-633.
10. Goffinet B., Le Roy P., Boichard D., Elsen J.M., Mangin B., Alternative models for QTL detection in livestock. III. Heteroskedastic model and models corresponding to several distributions of the QTL effects, Genet. Sel. Evol. 31 (1999) 341-350.
11. Haley C.S., Knott S.A., A simple regression method for mapping quantitative trait loci in line crosses using flanking markers, Heredity 69 (1992) 315-324.
12. Haley C.S., Knott S.A., Elsen J.M., Mapping quantitative trait loci in crosses between outbred lines using least squares, Genetics 136 (1994) 1195-1207.
13. Jansen R.C., Stam P., High resolution of quantitative traits into multiple loci via interval mapping, Genetics 136 (1994) 1447-1455.
14. Jiang C., Zeng Z.B., Multiple trait analysis of genetic mapping for quantitative trait loci, Genetics 140 (1995) 1111-1127.
15. Knapp S., Bridges W., Birked D., Mapping quantitative trait loci using molecular marker linkage maps, Theor. Appl. Gen. 79 (1990) 583-592.
16. Knott S.A., Haley C.S., Maximum likelihood mapping of quantitative trait loci using full-sib families, Genetics 132 (1992) 1211-1222.
17. Knott S.A., Haley C.S., Multiple least squares for quantitative trait loci detection, Genetics 156 (2000) 899-911.
18. de Koning D.J., Schulmant N.F., Elo K., Moisio S., Kinos R., Vilkki I., Maki-Tanila A., Mapping of multiple quantitative trait loci by simple regression in half-sib designs, J. Anim. Sci. 79 (2001) 616-622.
19. Korol A.B., Ronin Y.I., Kirzhner V.M., Interval mapping of quantitative trait loci employing correlated trait complexes, Genetics 140 (1995) 273-284.
20. Korol A.B., Ronin Y.I., Nevo E., Hayes P.M., Multi-interval mapping of correlated trait complexes, Heredity 80 (1998) 273-284.
21. Korol A.B., Ronin Y.I., Itskovich A.M., Peng J., Nevo E., Enhanced efficiency of quantitative trait loci mapping analysis based on multivariate complexes of quantitative traits, Genetics 175 (2001) 1789-1803.
22. Kucerova J., Lund M.S., Sorensen P., Sahana G., Guldbrandtsen B., Nielsen V.H., Thomsen B., Bendixen C., Multitrait quantitative trait loci mapping for milk production traits in danish Holstein cattle, J. Dairy Sci. 89 (2006) 2245-2256.
23. Lander E.S., Botstein D., Mapping mendelian factors underlying quantitative traits using RFLP linkage maps, Genetics 121 (1989) 185-199.
24. Lebreton C.H., Visscher P.M., Haley C.S., Semikhodskii A., Quarrie S.A., A nonparametric bootstrap method for testing close linkage vs. pleiotropy of coincident quantitative trait loci, Genetics 150 (1998) 931-943.
25. Le Roy P., Elsen J.M., Boichard D., Mangin M., Bidanel J.P., Goffinet B., An algorithmfor QTL detection inmixture of full and half sib families, in: 6th World Congress of Genetic Applied to Livestock Production, 11-16 January 1998, Vol. 26, University of New England, Armidale, pp. 257-260.
26. Lund M.S., Sorensen P., Guldbrandtsen B., Sorensen D.A., Multitrait fine mapping of quantitative trait loci using combined linkage disequilibria and linkage analysis, Genetics 136 (2003) 405-410.
27. Mangin B., Thoquet P., Grimsley N.H., Pleiotropic QTL analysis, Biometrics 54 (1998) 88-99.
28. Mangin B., Goffinet B., Le Roy P., Boichard D., Elsen J.M., Alternative models for QTL detection in livestock. II. Likelihood approximations and sire marker genotype estimations, Genet. Sel. Evol. 31 (1999) 225-237.
29. Mardia K.V., Kent J.T., Bibby J.M., Discriminate Analysis, in: Multivariate Analysis, Academic Press, London, 1979, pp. 300-332.
30. Martínez O., Curnow R.N., Estimating the locations and the sizes of the effects of quantitative trait loci using flanking markers, Theor. Appl. Genet. 85 (1992) 480-488.
31. Nakamichi R., Ukai Y., Kishino H., Detection of closely linked multiple quantitative trait loci using a genetic algorithm, Genetics 158 (2001) 463-475.
32. Ronin Y.I., Kirzhner V.M., Korol A.B., Linkage between loci of quantitative traits and marker loci: multitrait analysis with a single marker, Theor. Appl. Genet. 90 (1995) 776-786.
33. Ronin Y.I., Korol A.B., Nevo E., Single- and multiple-trait mapping analysis of linked quantitative trait loci. Some asymptotic analytical approximations, Genetics 151 (1999) 387-396.
34. Weller J.I., Wiggans G.R., VanRaden P.M., Ron M., Application of a canonical transformation to detection of quantitative trait loci with the aid of genetic markers in a multi-trait experiment, Theor. Appl. Genet. 92 (1996) 998-1002.
35. Zeng Z.B., Theoretical basis for separation of multiple linked gene effects in mapping quantitative trait loci, Proc. Natl. Acad. Sci. USA 90 (1993) 10972-10976.
36. Zeng Z.B., Precision mapping of quantitative trait loci, Genetics 136 (1994) 1457-1468.