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Haplogroup Classification of Korean Cattle Breeds Based on Sequence Variations of mtDNA Control Region
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 Title & Authors
Haplogroup Classification of Korean Cattle Breeds Based on Sequence Variations of mtDNA Control Region
Kim, Jae-Hwan; Lee, Seong-Su; Kim, Seung Chang; Choi, Seong-Bok; Kim, Su-Hyun; Lee, Chang Woo; Jung, Kyoung-Sub; Kim, Eun Sung; Choi, Young-Sun; Kim, Sung-Bok; Kim, Woo Hyun; Cho, Chang-Yeon;
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Many studies have reported the frequency and distribution of haplogroups among various cattle breeds for verification of their origins and genetic diversity. In this study, 318 complete sequences of the mtDNA control region from four Korean cattle breeds were used for haplogroup classification. 71 polymorphic sites and 66 haplotypes were found in these sequences. Consistent with the genetic patterns in previous reports, four haplogroups (T1, T2, T3, and T4) were identified in Korean cattle breeds. In addition, T1a, T3a, and T3b sub-haplogroups were classified. In the phylogenetic tree, each haplogroup formed an independent cluster. The frequencies of T3, T4, T1 (containing T1a), and T2 were 66%, 16%, 10%, and 8%, respectively. Especially, the T1 haplogroup contained only one haplotype and a sample. All four haplogroups were found in Chikso, Jeju black and Hanwoo. However, only the T3 and T4 haplogroups appeared in Heugu, and most Chikso populations showed a partial of four haplogroups. These results will be useful for stable conservation and efficient management of Korean cattle breeds.
Haplogroup;mtDNA;Control Region;Korean Cattle Breed;Phylogenetic Tree;
 Cited by
Achilli, A., A. Olivieri, M. Pellecchia, C. Uboldi, L. Colli, N. Al-Zahery, M. Accetturo, M. Pala, B. H. Kashani, U. A. Perego, V. Battaglia, S. Fornarino, J. Kalamati, M. Houshmand, R. Negrini, O. Semino, M. Richards, V. Macaulay, L. Ferretti, H. J. Bandelt, P. Ajmone-Marsan, and A. Torroni. 2008. Mitochondrial genomes of extinct aurochs survive in domestic cattle. Curr. Biol. 18:R157-R158. crossref(new window)

Anderson, S., M. H. L. Debrujin, A. R. Coulson, I. C. Eperson, F. Sanger, and I. G. Young. 1982. Complete sequence of bovine mitochondrial DNA conserved features of the mammalian mitochondrial genome. J. Mol. Biol. 156:683-717. crossref(new window)

Dadi, H., S. H. Lee, K. S. Jung, J. W. Choi, M. S. Ko, Y. J. Han, J. J. Kim, and K. S. Kim. 2012. Effect of population reduction on mtDNA diversity and demographic history of Korean cattle populations. Asian Australas. J. Anim. Sci. 25:1223-1228. crossref(new window)

Gou, X., Y. Wang, S. Yang, W. Deng, and H. Mao. 2010. Genetic diversity and origin of Gayal and cattle in Yunnan revealed by mtDNA control region and SRY gene sequence variation. J. Anim. Breed. Genet. 127:154-160. crossref(new window)

Gravlund, P., K. Aaris-Sorensen, M. Hofreiter, M. Meyer, J. P. Bollback, and N. Noe-Nygaard. 2012. Ancient DNA extracted from Danish aurochs (Bos primigenius): Genetic diversity and preservation. Ann. Anat. 194:103-111. crossref(new window)

Hall, T. A. 1999. BioEdit: A user-friendly biological sequence alignment editor and analysis program for windows 95/98/NT. Nucleic Acids Symp. Ser. 41:95-98.

Horsburgh, K. A., S. Prost, A. Gosling, J. A. Stanton, C. Rand, and E. A. Matisoo-Smith. 2013. The genetic diversity of the Nguni breed of African cattle (Bos spp.): Complete mitochondrial genomes of haplogroup T1. PLoS One 8:e71956. crossref(new window)

Hristov, P., D. Teofannova, B. Neov, and G. Radoslavov. 2015. Haplotype diversity in autochthonous Balkan cattle breeds. Anim. Genet. 46:92-94. crossref(new window)

Jia, S., Y. Zhou, C. Lei, R. Yao, Z. Zhang, X. Fang, and H. Chen. 2010. A new insight into cattle's maternal origin in six Asian countries. J. Genet. Genomics 37:173-180. crossref(new window)

Kim, J. B. and C. Lee. 2000. Historical look at the genetic improvement in Korean cattle - Review -. Asian Australas. J. Anim. Sci. 13:1467-1481. crossref(new window)

Kim, J. H., M. J. Byun, M. J. Kim, S. W. Suh, Y. G. Ko, C. W. Lee, K. S. Jung, E. S. Kim, D. J. Yu, W. Y. Kim, and S. B. Choi. 2013a. mtDNA diversity and phylogenetic state of Korean cattle breed, Chikso. Asian Australas. J. Anim. Sci. 26:163-170. crossref(new window)

Kim, J. H., M. J., Byun, M. J. Kim, S. W. Suh, Y. S. Kim, Y. G. Ko, S. W. Kim, K. S. Jung, D. H. Kim, and S. B. Choi. 2013b. Phylogenetic analysis of Korean black cattle Based on the Mitochondrial cytochrome b gene (in Korean). J. Life Sci. 23:24-30. crossref(new window)

Lai, S. J., Y. P. Liu, Y. X. Liu, X. W. Li, and Y. G. Yao. 2006. Genetic diversity and origin of Chinese cattle revealed by mtDNA D-loop sequence variation. Mol. Phylogenet. Evol. 38:146-154. crossref(new window)

Lei, C. Z., H. Chen, H. C. Zhang, X. Cai, R. Y. Liu, L. Y. Luo, C. F. Wang, W. Zhang, Q. L. Ge, R. F. Zhang, X. Y. Lan, and W. B. Sun. 2006. Origin and phylogeographical structure of Chinese cattle. Anim. Genet. 37:579-582. crossref(new window)

Librado, P. and J. Rozas. 2009. DnaSP v5: A software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25:1451-1452. crossref(new window)

Ludwig, A., L. Alderson, E. Fandrey, D. Liekfeldt, T. K. Soederlund, and K. Froelich. 2013. Tracing the genetic roots of the indigenous White Park cattle. Anim. Genet. 44:383-386. crossref(new window)

Mannen, H., M. Kohno, Y. Nagata, S. Tsuji, D. G. Gradley, J. S. Yeo, D. Nyamsamba, Y. Zagdsuren, M. Yokohama, K. Nomura, and T. Amano. 2004. Independent mitochondrial origin and historical genetic differentiation in North Eastern Asian cattle. Mol. Phylogenet. Evol. 32:539-544. crossref(new window)

Na, G. J. 2008. Characteristics of Korean native cattle (in Korean). Korea Animal Improvement Association Bulletin 1:42-52.

San, A., I. Martin-Burriel, C. Cons, M. Reta, A. Poblador, C. Rodellar, and P. Zaraqoza. 2014. Genetic diversity, structure and individual assignment of Casta Navarra cattle: a welldifferentiated fighting bull population. J. Anim. Breed. Genet. 131:11-18. crossref(new window)

Saitou, N. and M. Nei. 1987. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.

Sasazaki, S., S. Odahara, C. Hiura, F. Mukai, and H. Mannen. 2006. Mitochondrial DNA variation and genetic relationships in Japanese and Korean cattle. Asian Australas. J. Anim. Sci. 19:1394-1398. crossref(new window)

Suh, S. W., Y. S. Kim, C. Y. Cho, M. J. Byun, S. B. Choi, Y. G. Ko, C. W. Lee, K. S. Jung, K. H. Bae, and J. H. Kim. 2014. Assessment of genetic diversity, relationships and structure among Korean native cattle breeds using microsatellite markers. Asian Australas. J. Anim. Sci. 27:1548-1553. crossref(new window)

Tamura, K. and M. Nei. 1993. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 10:512-526.

Tamura, K., D. Peterson, N. Peterson, G. Stecher, M. Nei, and S. Kumar. 2011. MEGA5: Molecular evolutionary genetic analysis using maximum likelihood evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 28:2731-2739. crossref(new window)

Thompson, J. D., D. G. Higgins, and T. I. Gibson. 1994. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucl. Acids Res. 22:4673-4680. crossref(new window)

Troy, C. S., D. E. MacHugh, J. F. Bailey, D. A. Maqee, R. T. Loffus, P. Cunningham, A. T. Chamberlain, B. C. Sykes, and D. G. Bradley. 2001. Genetic evidence for Near-Eastern origins of European cattle. Nature 410:1088-1091. crossref(new window)

Tu, P. A., D. Y. Lin, G. F. Li, J. C. Huang, D. C. Wang, and P. H. Wang. 2014. Characterization of the genetic diversity and population structure for the yellow cattle in Taiwan based on microsatellite markers. Anim. Biotechnol. 25:234-249. crossref(new window)

Xin, Y. P., L. S. Zan, Y. F. Liu, W. Q. Tian, H. B. Wang, G. Cheng, A. N. Li, and W. C. Yang. 2014. Genetic diversity of Y-short tandem repeats in Chinese native cattle breeds. Genet. Mol. Res. 13:9578-9587. crossref(new window)