Advanced SearchSearch Tips
Identification of Candidate SNP (Single Nucleotide Polymorphism) for Growth and Carcass Traits Related to QTL on Chromosome 6 in Hanwoo (Korean Cattle)
facebook(new window)  Pirnt(new window) E-mail(new window) Excel Download
 Title & Authors
Identification of Candidate SNP (Single Nucleotide Polymorphism) for Growth and Carcass Traits Related to QTL on Chromosome 6 in Hanwoo (Korean Cattle)
Lee, Y.S.; Lee, J.H.; Lee, J.Y.; Kim, J.J.; Park, H.S.; Yeo, J.S.;
  PDF(new window)
As genetic markers, single nucleotide polymorphisms (SNP) are very appropriate for the development of genetic tests for economic traits in livestock. Several microsatellite markers have been identified as useful markers for the genetic improvement of Hanwoo. Among those markers, ILSTS035 was recently mapped at a similar position with four SNPs (AH1_11, AH1_9, 31465_446, and 12273_165) in a linkage map of EST-based SNP in BAT6. Among the four SNPs, two SNPs (31465_446 and 12273_165) were analyzed using BLAST at the NCBI web site. The sequences including the 12273_165 SNP were identified at the intron region within the LOC534614 gene on the gene sequence map (Bos taurus NCBI Map view, build 3.1). The LOC534614 gene represents a protein similar to myosin heavy chain, fat skeletal muscle, embryonic isoform 1 in the dog, and myosin_1 (Myosin heavy chain D) in Macaca mulatta. In cattle, the myosin heavy chain was associated with muscle development. The phenotypic data for growth and carcass traits in the 415 animals were analyzed by the mixed ANCOVA (analysis of covariance) linear model using PROC GLM module in SAS v9.1. By the genotyping of Hanwoo individuals (n = 415) to evaluate the association of SNP with growth and carcass traits, it was shown that the 12273_165 SNP region within LOC534614 may be a candidate marker for growth. The results of the statistical analyses suggested that the genotype of the 12273_165 SNP significantly affected birth weight, weight of the cattle at 24 months of age, average daily gain and carcass cold weight (p<0.05). Consequently, the 12273_165 SNP polymorphisms at the LOC534614 gene may be associated with growth in Hanwoo, and functional validation of polymorphisms in LOC534614 should be performed in the future.
 Cited by
Detection of Quantitative Trait Loci for Growth and Carcass Traits on BTA6 in a Hanwoo Population,Lee, Y.-M.;Lee, Y.S.;Han, C.-M.;Lee, J.-H.;Yeo, J.S.;Kim, Jong-Joo;

Asian-Australasian Journal of Animal Sciences, 2010. vol.23. 3, pp.287-291 crossref(new window)
Application of Linkage Disequilibrium Mapping Methods to Detect QTL for Carcass Quality on Chromosome 6 Using a High Density SNP Map in Hanwoo,Lia, Y.;Lee, J.H.;Lee, Y.M.;Kim, J.J.;

Asian-Australasian Journal of Animal Sciences, 2011. vol.24. 4, pp.457-462 crossref(new window)
A Single Nucleotide Polymorphism in LOC534614 as an Unknown Gene Associated with Body Weight and Cold Carcass Weight in Hanwoo (Korean Cattle),Lee, Y.S.;Oh, D.Y.;Kim, J.J.;Lee, J.H.;Park, H.S.;Yeo, J.S.;

Asian-Australasian Journal of Animal Sciences, 2010. vol.23. 12, pp.1543-1551 crossref(new window)
확장된 다중인자 차원축소 (E-MDR) 알고리즘에 기반한 유전자 상호작용 효과 규명,이제영;이호근;이용원;

응용통계연구, 2009. vol.22. 6, pp.1239-1247 crossref(new window)
연속형 데이터에서 E-MDR과 D-MDR방법 비교,이제영;이호근;

Communications for Statistical Applications and Methods, 2009. vol.16. 4, pp.579-586 crossref(new window)
Genetic variants and signatures of selective sweep of Hanwoo population (Korean native cattle),Lee, Taeheon;Cho, Seoae;Seo, Kang Seok;Chang, Jongsoo;Kim, Heebal;Yoon, Duhak;

BMB Reports , 2013. vol.46. 7, pp.346-351 crossref(new window)
Transcript profiling of expressed sequence tags from intramuscular fat, longissimus dorsi muscle and liver in Korean cattle (Hanwoo),Lim, Da-Jeong;Lee, Seung-Hwan;Cho, Yong-Min;Yoon, Du-Hak;Shin, Youn-Hee;Kim, Kyu-Won;Park, Hye-Sun;Kim, Hee-Bal;

BMB Reports , 2010. vol.43. 2, pp.115-121 crossref(new window)
A Restricted Partition Method to Detect Single Nucleotide Polymorphisms for a Carcass Trait in Hanwoo,Lee, Ji-Hong;Kim, Dong-Chul;Kim, Jong-Joo;Lee, Jea-Young;

Asian-Australasian Journal of Animal Sciences, 2011. vol.24. 11, pp.1525-1528 crossref(new window)
Identification of Superior Single Nucleotide Polymorphisms (SNP) Combinations Related to Economic Traits by Genotype Matrix Mapping (GMM) in Hanwoo (Korean Cattle),Lee, Yoon-Seok;Oh, Dong-Yep;Lee, Yong-Won;Yeo, Jung-Sou;Lee, Jea-Young;

Asian-Australasian Journal of Animal Sciences, 2011. vol.24. 11, pp.1504-1513 crossref(new window)
Casas, E., S. D. Shackelford, J. W. Keele, R. T. Stone, S. M. Kappes and M. Koohmaraie. 2000. Quantitative trait loci affecting growth and carcass composition of cattle segregating alternate forms of myostatin. J. Anim. Sci. 78:560-569.

Casas, E., S. D. Shackelford, J. W. Keele, M. Koohmaraie, T. P. L. Smith and R. T. Stone. 2003. Detection of quantitative trait loci for growth and carcass composition in cattle. J. Anim. Sci. 81:2976-2983.

Chung, E. R. and W. T. Kim. 2005. Association of SNP marker in IGF_1 and MYF5 candidate genes with growth traits in Korean cattle. Asian-Aust. J. Anim. Sci. 18:1061-1065.

Connor, E. E., T. S. Sonstegard, M. S. Ashwell, G. L. Bennett and J. L. Williams. 2004. An expanded comparative map of bovine chromosome 27 targeting dairy form QTL regions. Anim. Genet. 35:265-269. crossref(new window)

Ihara, N., A. Takasuga, K. Mizoshita, H. Takeda, M. Sugimoto, Y. Mizoguchi, T. Hirano, T. Itoh, T. Watanabe, K. M. Reed, W. M. Snelling, S. M. Kappes, C. W. Beattie, G. L. Bennett and Y. Sugimoto. 2004. A comprehensive genetic map of the cattle genome based on 3802 Microsatellites. Genome. Res. 14:1987-1998. crossref(new window)

Joulia, D., H Bernardi, V Garandel, F Rabenoelina, B Vernus and G. Cabello. 2003. Mechanisms involved in the inhibition of myoblast proliferation and differentiation by myostatin. Exp. Cell. Res. 286:263-275. crossref(new window)

Kim, J. W., S. I. Park and J. S. Yeo. 2003. Linkage mapping and QTL on chromosome 6 in Hanwoo (Korean Cattle). Asian-Aust. J. Anim. Sci. 16:1402-1405.

Kneeland, J., C. Li, J. Basarab, W. M. Snelling, B. Benkel, B. Murdoch, C. Hansen and S. S. Moore. 2004. Identification and fine mapping of quantitative trait loci for growth traits on bovine chromosomes 2, 6, 14, 19, 21, and 23 within one commercial line of Bos taurus. J. Anim. Sci. 82:3405-3414.

Lee, J. Y., J. C. Kwon and J. J. Kim. 2008. Multifactor dimensionality reduction (MDR) analysis to detect single nucleotide polymorphisms associated with a carcass trait in a Hanwoo population. Asian-Aust. J. Anim. Sci. 21:784-788.

Martyn, J. K., J. J. Bass and J. M. Oldham. 2004. Skeletal muscle development in normal and double-muscled cattle. Anat. Rec. Part. A. 281A:1363-1371. crossref(new window)

McPherron, A. C. and S. J. Lee. 1997. Double muscling in cattle due to mutations in the myostatin gene. Proc. Natl. Acad. Sci. 94:12457-12461. crossref(new window)

Reich, D. E., M. Cargill, S. Bolk, J. Ireland, P. C. Sabeti, D. J. Richter, T. Lavery, R. Kouyoumjian, S. F. Farhadian, R. Ward and E. S. Lander. 2001. Linkage disequilibrium in the human genome. Nature 411:199-204. crossref(new window)

Rios, R., I Carneiro, V. Arce and J. Devesa. 2003. Myostatin is an inhibitor of myogenic differentiation. Am. J. Physiol. 282:993-999.

Sambrook, J. and D. W. Russell. 2001. Molecular cloning. 3rd Ed. Cold Spring Harbor Laboratory Press. Cold Spring Harbor. New York. pp. 6:28-30.

Sherman, E. L., J. D. Nkrumah, B. M. Murdoch, C. Li, Z. Wang, A. Fu and S. S. Moore. 2008. Polymorphisms and haplotypes in the bovine NPY, GHR, GHRL, IGF2, UCP2, and UCP3 genes and their associations with measures of growth, performance, feed efficiency and carcass merit in beef cattle. J. Anim. Sci. (In press)

Snelling, W. M., E. Casas, R. T. Stone, J. W. Keele, G. P. Harhay, G. L. Bennett and T. P. L. Smith. 2005. Linkage mapping bovine EST-based SNP. BMC. Genet. 6:74-83. crossref(new window)

Thue, T. D. and F. C. Buchanan. 2004. Linkage mapping of NPY to bovine chromosome 4. Anim. Genet. 35:245-264.

Vreeland, W. N., R. J. Meagher and A. E. Barron. 2002. Multiplexed, highthroughput genotyping by single-base extension and endlabeled free_solution electrophoresis. Anal. Chem. 74(17):4328-4333. crossref(new window)

Weikard, R., C. Kühn, T. Goldammer, G. Freyer and M. Schwerin. 2005. The bovine PPARGC1A gene: molecular characterization and association of an SNP with variation of milk fat synthesis. Physiol. Genomics. 21:1-13. crossref(new window)

Wiltshire, T., M. T. Pletcher, S. Batalov, B. S. Whitney, L. M. Tarantino, M. P. Cooke, H. Wu, K. Smylie, A. Santrosyan, N. G. Copeland, N. A. Jenkins, F. Kalush, R. J. Mural, R. J. Glynne, S. A. Kay, M. D. Adams and C. F. Fletcher. 2003. Genome-wide single-nucleotide polymorphism analysis defines haplotype patterns in mouse. Proceeding of the National Academy of Sciences of the United States of America. 100:3380-3385 crossref(new window)