Browse > Article

Designing of the Statistical Models for Imprinting Patterns of Quantitative Traits Loci (QTL) in Swine  

Yoon D. H. (농촌진흥청 축산연구소)
Kong H. S. (한경대학교 유전정보연구소)
Cho Y. M. (농촌진흥청 축산연구소)
Lee J. W. (농촌진흥청 축산연구소)
Choi I. S. (한경대학교 유전정보연구소)
Lee H. K. (한경대학교 유전정보연구소)
Jeon G. J. (한경대학교 유전정보연구소)
Oh S. J. (농촌진흥청 축산연구소)
Cheong I. C. (농촌진흥청 축산연구소)
Publication Information
Journal of Embryo Transfer / v.19, no.3, 2004 , pp. 291-299 More about this Journal
Abstract
Characterization of quantitative trait loci (QTL) was investigated in the experimental cross population between Berkshire and Yorkshire breed. A total of 512 F$_2$ offspring from 65 matting of F$_1$ parents were phenotyped the carcass traits included average daily gain (ADG), average backfat thickness (ABF), tenth rip backfat thickness (TRF), loin eye area (LEA), and last rip backfat thickness (LRF). All animals were genotyped for 125 markers across the genome. Marker linkage maps were derived and used in QTL analysis based on line cross least squares regression interval mapping. A decision tree to identify QTL with imprinting effects was developed based on tests against the Mendelian mode of QTL expression. To set the evidence of QTL presence, empirical significance thresholds were derived at chromosome-wise and genome-wise levels using specialized permutation strategies. Significance thresholds derived by the permutation test were validated in the data set based on simulation of a pedigree and data structure similar to the Berkshire-Yorkshire population. Genome scan revealed significant evidences for 13 imprinted QTLs affecting growth and body compositions of which nine were identified to be QTL with paternally expressed inheritance mode. Four of QTLs in the loin eye area (LEA), and tenth rip backfat thickness (TRF), a maternally expressed QTL were found on chromosome 10 and 12. These results support the useful statistical models to analyse the imprinting far the QTLs related carcass trait.
Keywords
swine; quantitative trait loci; gametic imprinting; genome scan;
Citations & Related Records
연도 인용수 순위
  • Reference
1 Jeon JT, Carlborg O, Tornsten A, Giuffra E, Amarger V, Chardon P, Andersson L, Andersson K, Hansson I, Lundstrom K and Andersson L. 1999. A paternally expressed QTL affecting skeletal and cardiac muscle mass in pig mass to the IGF2 locus. Nat. Genet., 21:157-158   DOI   ScienceOn
2 Andersson L, Haley CS, Ellegren H, Knott SA, Johansson M et al. (1994) Genetic mapping of quantitative trait loci for growth and fatness in pig. Science, 263:1771-1774   DOI   PUBMED
3 Rattink AP, De Koning DJ, Faivre M, Harlizius B, Van Arendonk JAM and Groenen MAM. 2000. Fine mapping and impringting analysis for fatness trait QTLs in pigs. Mamm. Genome, 11: 656-661   DOI   ScienceOn
4 Hirooka H, De Koning DJ, Harlizus B, Van Arendonk JAM, Rattink AP, Groenen MAM, Brascamp EW and Bovenhuis H. 2001. A whole-genome scan for quantitative traits loci affecting test number in pigs. J. Anim. Sci., 79:2320-2326   DOI
5 Churchill GA and Doerge RW. 1994. Empirical threshold values for quantitative trait mapping. Genetics, 138:963-971
6 Rohrer GA and Keele JW. 1998. Identification of quantitative trait loci affecting carcass composition in swine: I. Fat deposition traits. J. Anim. Sci., 76:2247-2254   DOI
7 Haley CS, Knott SA and Elsen JM. 1994. Mapping quantitative trait loci in crosses between outbred lines using least squares. Genetics, 136: 1195-1207
8 Nezer C, Moreau L, Brouwer B, Coppieters W, Detilleux J, Hanset R, Karim L, Kvasz A, Leroy P and George M. 1999. An imprinted QTL with major effect on muscle mass and fat deposition maps to the IGF2 locus in pig. Nat. Genet., 21:155-157   DOI   ScienceOn
9 Marklund L, Nystrom P, Stren S, Andersson L and Andersson EL. 1999. Confirmed quantitative trait loci for fatness and growth on pig chromosome 4. Heredity, 82:134-141   DOI   ScienceOn
10 Malek M, Dekkers JCM, Lee HK, Cross HR and Rothschild MF. 2001. A molecular genome scan analysis to identify chromosome regions influencing economic traits in the pig. Ⅱ. Meat and muscle composition. Mamm. Genome, 12:637-645   DOI   ScienceOn
11 Wang L, Yu TP, Tuggle CK, Liu HC and Rothschild MF. 1998. A directed search for quantitative trait loci on chromosomes 4 and 7 in the pig. J. Anim. Sci., 76:2560-2567   DOI
12 De Koning DJ, Rattink AP, Harlizius B, Johan AM, Van Arendonk JAM, Brascamp EW and Groenen MAM. 2000. Genome-wide scan for body composition in pig reveals important role of imprinting. Proc. Natl. Acad. Sci. USA, 97: 7947-7950   DOI   ScienceOn
13 Spelman RJ, Coppieters W, Karim L, Van Arendonk JAM and Bovenhui H. 1996. Quantitative trait loci analysis for five milk production traits on chromosome six in the Holstein-Friesan population. Genetics, 144:1799-1808