Communications for Statistical Applications and Methods

The Korean Statistical Society (한국통계학회)
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Bootstrapping and DNA Marker Mining of ILSTS098 Microsatellite Locus in Hanwoo Chromosome 2

  • Published : 2006.12.31
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Abstract

We describe tests for detecting and locating quantitative traits loci (QTL) for traits in Hanwoo. Lod scores and a permutation test have been described. From results of a permutation test to detect QTL, we select major DNA markers of ILSTS098 microsatellite locus in Hanwoo chromosome 2 for further analysis. K-means clustering analysis applied to four traits and eight DNA markers in ILSTS098 resulted in three cluster groups. We conclude that the major DNA markers of BMS1167 microsatellite locus in Hanwoo chromosome 2 are markers 105bp, 113bp and 115bp. Finally, bootstrap testing method has been adapted to calculate confidence intervals and for finding major DNA Markers.

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References

  1. Bishop, M.D., Kappes, S.M., Keele, J.W. Stone, R.T., Sunden, S.L. F., Hawkins, G.A, Toddo, S.S., Fries, R, Grosz, M.D., J. Yoo and Beattier, C.W. (1994). A genetic linkage map for cattle. Genetics, Vol. 136, 619-639
  2. Casas, E., Shackelford, S.D., Keele, J.W, Stone, R.T., Kappes, S.M. and Koohmaraie, M. (1999a). Evidence of quantitative trait loci affecting growth and carcass composition traits in cattle segregating the muscle hypertrophy locus. Joumal of Animal Science 77 Supplement, Vol. 1, 126-127
  3. Casas, E., Keele, J.W., Kappes, S.M. and Stone, R.T. (1999b). A quantitative trait locus for birth and yearling weight segregates on chromosome 6 in Bas Taurus cattle. Plant & Animal Genome VII Conference, San Diego, CA:P150
  4. Chotai, J. (1984). On the lad score method in linkage analysis. The Annals of Human Genetics, Vol. 48, 359-378 https://doi.org/10.1111/j.1469-1809.1984.tb00849.x
  5. Churchill, G.A and Doerge, R.W. (1994). Empirical Threshold Values for Quantitative Trait Mapping, Genetics, Vol. 13, 963-971
  6. Efron B., Tibshirani R. (1993) An introdction to bootstrap. Chapman & Hall
  7. Georges, M., Nielsen, D., Mackinnon, M., Mishra, A, Okimoto, R, Pasquino, A T., Sargeant, L.S., Sorenson, A, Steele, M.R., Zhao, X., Womack, J.E. and Hoeschele, I. (1995). Mapping quantitative trait loci controlling milk production in dairy cattle by exploting progeny testing. Genetics, Vol. 139, 907-920
  8. Hirano, T., Kobayashi, N., Nakamaru, T., Hara, K. and Sugimoto, Y (1998). Linkage analysis of meat quality in Wagyu. 26th International Conference on Animal Genetics, Auckland, New ZealandEul.S
  9. Kim, J,W., Jang, T.K. Park, Y.A. and Yeo, J,S. (2000). Linkage mapping of chromosome 6 in the Korean CattletlIanwoo). Asian-Australisian. Journal Animal Sciences 13(Suppl.):235
  10. Mannen, H., Tsuji, S., Mukai, F., Goto, N. and Ohtagaki, S. (1993). Genetic Similarity using DNA fingerprinting in cattle to determine relationship coefficient. Journal of Heredity Vol. 84, 166-169 https://doi.org/10.1093/oxfordjournals.jhered.a111310
  11. Ott, Jurg, (1999). Analysis of human genetic linkage, 3rd ed. The Johns Hopkins university press
  12. Peter M. Visscher, Robin Thompson and Chris S.H. (1996). Confidence Intervals in QTL Mapping by Bootstrapping. Genetics, Vol. 143, 1013-1020
  13. Phillip, G. (1994). Permutation Test, Springer-Verlag
  14. Rassman, K., Scholotterer, C. and Tautz, D. (1991). Isolation of simple seq -uence loci for use in polymerase chain reaction base DNA finger printing. Electrophoresis, Vol. 12, 113-118 https://doi.org/10.1002/elps.1150120205
  15. Stone, R.T., Casas, E., Cappes, S.M. and Keele, J,W. (1999). Status of mapping bovine QTL at the U.S. meat animal research center. Plant-Animal Genome VH Conference, San Diego, CA:W34
  16. Taylor, J,F., Davis, S.K., Sanders, J.O., Turner, J.W., Miller R.K., and Smith, S.B. (1998). Identification of QTLs for growth and carcass quality in a cross between Bos indicus and Bos taurus. Plant-Animal Genome VII Conference, San Diego, CA:W19
  17. Yeo, J.S., Lee, J,Y and Kim, J,W. (2004). DNA Marker Mining of ILSTS035 Microsatellite Locus on Chromosome 6 of Hanwoo Cattle. Journal of Genetics, Vol. 83, 245-250 https://doi.org/10.1007/BF02717893