Asian-Australasian Journal of Animal Sciences

Asian Australasian Association of Animal Production Societies (아세아태평양축산학회)
권호 표지
DOI QR코드

DOI QR Code

Detection of Imprinted Quantitative Trait Loci (QTL) for Growth Traits in Pigs

  • Lee, H.K. (Department of Genomic Engineering, Genomic Informatics Center, Hankyong National University) ;
  • Lee, S.S. (Department of Animal Science, University of Sydney) ;
  • Kim, T.H. (National Livestock Research Institute, Rural DevelopmentAdministration) ;
  • Jeon, G.J. (Department of Genomic Engineering, Genomic Informatics Center, Hankyong National University) ;
  • Jung, H.W. (Department of Animal Husbandry, Yonam College ofAgriculture) ;
  • Shin, Y.S. (Shinku College) ;
  • Han, J.Y. (Department of Animal Science and Technology, Seoul NationalUniversity) ;
  • Choi, B.H. (National Livestock Research Institute, Rural Development Administration) ;
  • Cheong, I.C. (National Livestock Research Institute, Rural Development Administration)
  • Received : 2002.09.05
  • Accepted : 2003.03.19
  • Published : 2003.08.01
Download PDF
⟨ Previous Next ⟩

Abstract

As an experimental reference population, crosses between Korean native pig and Landraces were established and information on growth traits was recorded. Animals were genotyped for 24 microsatellite markers covering chromosomes 2, 6, and 7 for partial-genome scan to identify chromosomal regions that have effects on growth traits. quantitative trait loci (QTL) effects were estimated using interval mapping by the regression method under the line cross models with a test for imprinting effects. For test of presence of QTL, chromosome-wide and single position significance thresholds were estimated by permutation test and normal significance threshold for the imprinting test were derived. For tests against the Mendelian model, additive and dominance coefficients were permuted within individuals. Thresholds (5% chromosome-wide) against the no-QTL model for the analyzed traits ranged from 4.57 to 4.99 for the Mendelian model and from 4.14 to 4.67 for the imprinting model, respectively. Partial-genome scan revealed significant evidence for 4 QTL affecting growth traits, and 2 out of the 4 QTLs were imprinted. This study demonstrated that testing for imprinting should become a standard procedure to unravel the genetic control of multi-factorial traits. The models and tests developed in this study allowed the detection and evaluation of imprinted QTL.

Keywords

References

  1. Andersson, L., C. S. Haley, H. Ellegren, S. A. Knott and M. Johansson. 1994. Genetic mapping of quantitative trait loci for growth and fatness in pigs. Science 263:1771-1774. https://doi.org/10.1126/science.8134840
  2. Churchill, G. A. and R. W. Doerge. 1994. Empirical threshold values for quantitative trait mapping. Genetics 138:963-931.
  3. De Vries, A. G., R. Kerr, B. Tier, and T. Long. 1994. Gametic imprinting effects on rate and composition of pig growth. Theor. Appl. Genet. 88:1037-1042.
  4. De Koning, D. J., A. P. Rattink, B. Harlizius, A. M. Johan, J. A. M. Van Arendonk, E. W. Brascamp, and M. A. M. Groenen. 2000. Genome-wide scan for body composition in pig reveals important role of imprinting. Proc. Natl. Acad. Sci. USA. 97:7947-7950. https://doi.org/10.1073/pnas.140216397
  5. Green, P., I. Fall, and S. Crook. 1990. Documentation for CRIMAP version 2.4. Washington University School of Medicine, St. Louis, MO.
  6. Haley, C. S., S. A. Knott and J. M. Elson. 1994. Mapping quantitative trait loci in crosses between outbred lines using least squares. Genetics 136:1195-1207.
  7. Joen, J. T., O. Carlborg, A. Tornsten, E. Giuffra, V. Amarger, P. Chardon, L. Andersson, K. Andersson, I. Hansson, K. Lundstrom, and L. Andersson. 1999. A paternally expressed QTL affecting skeletal and cardiac muscle mass in pig mass to the IGF-2 locus. Nature Genet. 21:157-158. https://doi.org/10.1038/5938
  8. Knott, S. A., L. Marklund, C. S. Haley, K. Andersson, W. Davies, H. Ellegren, M. Fredholm, I. Hansson, B. Hoyheim, K. Lundstrom, M. Moller and L. Andersson. 1998. Multiple marker mapping of quantitative trait loci in a cross between outbred wild boar and large white pigs. Genetics 149:1069-1080.
  9. Lee, H. K. and G. J. Jeon. Detection of significance threshold for detecting QTL. 2002. J. Anim. Sci. & Technol. (Kor) 44:31-38. https://doi.org/10.5187/JAST.2002.44.1.031
  10. Nezer, C., L. Moreau, B. Brouwer, W. Coppieters, J. Detilleux, R. Hanset, L. Karim, P. Kvasz, A. Leroy and M. George. 1999. An imprinted QTL with major effect on muscle mass and fat deposition maps to the IGF2 locus in pig. Nat. Genet. 21:155-156. https://doi.org/10.1038/5935
  11. Rattink, A. P., D. J. de Koning, M. Faivare, B. Harlizius, A. M. Johan, J. A. M. van Arendonk, and M. A. M. Groenen. 2000. Fine mapping and imprinting analysis for fatness trait QTLs in pigs. Mamm. Genome 11:656-661. https://doi.org/10.1007/s003350010117
  12. Seaton, G., C. S. Haley, S. A. Knott, M. Kearsey and P. M. Visscher. 2002. QTL Express: mapping quantitative trait loci in simple and complex pedigrees. Bioinformatics Applications Note. 18:339-340. https://doi.org/10.1093/bioinformatics/18.2.339
  13. Wang, L., T. P. Yu, C. K. Tuggle, H. C. Liu, and M. F. Rothschild. 1998. A directed search for quantitative trait loci on chromosomes 4 and 7 in the pig. J. Anim. Sci. 76:2560-2567.

Cited by

  1. Validation of a paternally imprinted QTL affecting pH24h distinct from PRKAG3 on SSC15 vol.42, pp.3, 2011, https://doi.org/10.1111/j.1365-2052.2010.02133.x
  2. Identification of SNPs Affecting Porcine Carcass Weight with the 60K SNP Chip vol.55, pp.4, 2013, https://doi.org/10.5187/JAST.2013.55.4.231
  3. Incorporating parent-of-origin effects in whole-genome prediction of complex traits vol.48, pp.1, 2016, https://doi.org/10.1186/s12711-016-0213-1
  4. Quantitative Genetics of Genomic Imprinting: A Comparison of Simple Variance Derivations, the Effects of Inbreeding, and Response to Selection vol.1, pp.2, 2011, https://doi.org/10.1534/g3.111.000042
  5. Mapping of the Porcine Calpastatin Gene and Association Study of Its Variance with Economic Traits in Pigs vol.19, pp.8, 2003, https://doi.org/10.5713/ajas.2006.1085
  6. cDNA Cloning, Tissue Expression and Association of Porcine Pleiomorphic Adenoma Gene-like 1 (PLAGL1) Gene with Carcass Traits vol.19, pp.9, 2003, https://doi.org/10.5713/ajas.2006.1257
  7. Comparative Analysis of Repetitive Elements of Imprinting Genes Reveals Eleven Candidate Imprinting Genes in Cattle vol.22, pp.6, 2003, https://doi.org/10.5713/ajas.2009.80485
  8. Characterization of QTL for Growth and Meat Quality in Combined Pig QTL Populations vol.24, pp.12, 2003, https://doi.org/10.5713/ajas.2011.11221