Browse > Article
http://dx.doi.org/10.5713/ajas.2012.12499

mtDNA Diversity and Phylogenetic State of Korean Cattle Breed, Chikso  

Kim, Jae-Hwan (Animal Genetic Resources Station, National Institute of Animal Science, RDA)
Byun, Mi Jeong (Animal Genetic Resources Station, National Institute of Animal Science, RDA)
Kim, Myung-Jick (Animal Genetic Resources Station, National Institute of Animal Science, RDA)
Suh, Sang Won (Animal Genetic Resources Station, National Institute of Animal Science, RDA)
Ko, Yeoung-Gyu (Animal Genetic Resources Station, National Institute of Animal Science, RDA)
Lee, Chang Woo (Gangwon Provincial Livestock Research Center)
Jung, Kyoung-Sub (Chungbuk Institute of Livestock and Veterinary Research)
Kim, Eun Sung (Jeonbuk Institute of Livestock and Veterinary Research)
Yu, Dae Jung (Jeonnam Agricultural Research and Extension Services)
Kim, Woo Hyun (Gyeongbuk Livestock Research Institute)
Choi, Seong-Bok (Animal Genetic Resources Station, National Institute of Animal Science, RDA)
Publication Information
Asian-Australasian Journal of Animal Sciences / v.26, no.2, 2013 , pp. 163-170 More about this Journal
Abstract
In order to analyze the genetic diversity and phylogenetic status of the Korean Chikso breed, we determined sequences of mtDNA cytochrome b (cyt b) gene and performed phylogenetic analysis using 239 individuals from 5 Chikso populations. Five non-synonymous mutations of a total of 15 polymorphic sites were identified among 239 cyt b coding sequences. Thirteen haplotypes were defined, and haplotype diversity was 0.4709 ranging from 0.2577 to 0.6114. Thirty-five haplotypes (C1-C35) were classified among 9 Asia and 3 European breeds. C2 was a major haplotype that contained 206 sequences (64.6%) from all breeds used. C3-C13 haplotypes were Chikso-specific haplotypes. C1 and C2 haplotypes contained 80.5% of cyt b sequences of Hanwoo, Yanbian, Zaosheng and JB breeds. In phylogenetic analyses, the Chikso breed was contained into B. taurus lineage and was genetically more closely related to two Chinese breeds than to Korean brown cattle, Hanwoo. These results suggest that Chikso and Hanwoo have a genetic difference based on the mtDNA cyt b gene as well as their coat color, sufficient for classification as a separate breed.
Keywords
Phylogenetic Analysis; Chikso; Haplotype; mtDNA; Cytochrome b;
Citations & Related Records
연도 인용수 순위
  • Reference
1 FAO. 2007b. The State of the World's Animal Genetic Resources for Food and Agriculture. FAO, Rome.
2 Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791.   DOI   ScienceOn
3 Hall, S. J. G. and D. G. Bradley. 1995. Conserving livestock breed biodiversity. Trends Ecol. Evol. 10:267-270.   DOI   ScienceOn
4 Helmer, D., L. Gourichon, H. Monchot, J. Peters and M. S. Segui. 2005. Identifying early domestic cattle from Pre-Pottery Neolithic sites on the Midddle Euphrates using sexual dimorphism. In: The first steps of animal domestication: new archaeozoological approaches (Ed. J-D. Vigne, J. Peters and D. Helmer). Oxford: Oxbow. pp. 86-95.
5 Irwin, D. M., T. D., Kocher and A. C. Wilson. 1991. Evolution of the cytochrome b gene of mammals. J. Mol. Evol. 32:128-144.   DOI   ScienceOn
6 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.   DOI   ScienceOn
7 Kikkawa, Y., T. Takada, Sutopo, K. Nomura, T. Namikawa, H. Yonekawa and T. Amano. 2003. Phylogenies using mtDNA and SRY provide evidence for male-mediated introgression in Asian domestic cattle. Anim. Genet. 34:96-101.   DOI   ScienceOn
8 Kim, K. I., J. H. Lee, S. S. Lee and Y. H. Yang. 2003 Phylogenetic relationships of Northeast Asian cattle to other cattle populations determined using mitochondrial DNA D-Loop sequence polymorphism. Biochem. Genet. 41:91-98.   DOI   ScienceOn
9 Lau, C. H., R. D. Drinkwater, K, Yusoff, S. G. Tan, D. J. S. Hetzel and J. S. F. Barker. 1998. Genetic diversity of Asian water buffalo (Bubalus bubalis): mitochondrial DNA D-loop and cytochrome b sequence variation. Anim. Genet. 29:253-264.   DOI   ScienceOn
10 Librado, P. and J. Rozas. 2009. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25:1451-1452.   DOI   ScienceOn
11 MacHugh, D. E., R. T. Loftus, P. Cunningham and D. G. Bradley. 1998. Genetic structure of seven European cattle breeds assessed using 20 microsatellite markers. Anim. Genet. 29:333-40.   DOI   ScienceOn
12 Mannen, H., M. Kohno, Y. Nagata, S. Tsuji, D. G. Bradley, 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.   DOI   ScienceOn
13 Martin-Burriel, I., C. Rodellar, J. Canon, O. Cortes, S. Dunner, V. Landi, A. Martinez-Martinez, L. T. Gama, C. Ginja, M. C. T. Penedo, A. Sanz, P. Zaragoza and J. V. Delgado. 2011. Genetic diversity, structure, and breed relationships in Iberian cattle. J. Anim. Sci. 89:893-906.   DOI   ScienceOn
14 Simianer, H. 2005. Decision making in livestock conservation. Ecol. Econ. 53:559-572.   DOI   ScienceOn
15 Miller, S. A., D. D. Dykes and H. F. Polesky. 1988. A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic Acids Res. 16:1215.   DOI   ScienceOn
16 Pesole, G., C. Gissi, A. de Chirica and C. Saccone. 1999. Nucleotide substitution rate of mammalian mitochondria genomes. J. Mol. Evol. 48:427-434.   DOI   ScienceOn
17 Saitou, N. and M. Nei. 1987. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
18 Souza, C. A., S. R. Paiva, R. W. Pereira, S. E. Guimaraes, W. M. Jr Dutra, L. S. Murata and A. S. Mariante. 2009. Iberian origin of Brazilian local pig breeds based on Cytochrome b (MT-CYT) sequence. Anim. Genet. 40:759-762.   DOI   ScienceOn
19 Stock, F., C. J. Edwards, R. Bollongino, E. K. Finlay, J. Burger and D. G. Bradley. 2009. Cytochrome b sequences of ancient cattle and wild ox support phylogenetic complexity in the ancient and modern bovine populations. Anim. Genet. 40:694-700.   DOI   ScienceOn
20 Sultana, S., H. Mannen and S. Tsuji. 2003. Mitochondrial DNA diversity of Pakistani goats. Anim. Genet. 34:417-421.   DOI   ScienceOn
21 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.   DOI   ScienceOn
22 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.   DOI   ScienceOn
23 Ruane, J. 2000. A framework for prioritizing domestic animal breeds for conservation purposes at the national level: a Norwegian case study. Conserv. Biol. 14:1385-1393.   DOI   ScienceOn
24 Toro, M. and A. Caballero. 2005. Characterization and conservation of genetic diversity in subdivided populations. Philos. Trans. R. Soc. Lond. B Biol. Sci. 360:1367-1378.   DOI   ScienceOn
25 Troy, C. S., D. E. MacHugh, J. F. Bailey, D. A. Magee, R. T. Loftus, 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.   DOI   ScienceOn
26 Yap, F. C., Y. J. Yan, K. T. Loon, J. L. Zhen, N. W. Kamau and J. V. Kumaran. 2010. Phylogenetic analysis of different breeds of domestic chickens in selected area of Peninsular Malaysia inferred from partial cytochrome b gene information and RAPD markers. Anim. Biotechnol. 21:226-240.   DOI   ScienceOn
27 Anderson, S., M. H. de Bruijn, A. R. Coulson, I. C. Eperon, F. Sanger and G. I. Young. 1982. Complete sequence of bovine mitochondrial DNA. Conserved features of the mammalian mitochondrial genome. J. Mol. Biol. 156:683-717.   DOI
28 Berthouly, C., J. C. Maillard, L. Pham Doan, T. Nhu Van, B. Bed'Hom, G. Leroy, H. Hoang Thanh, D. Laloe, N. Bruneau, C. Vu Chi, V. Nguyen Dang, E. Verrier and X. Rognon. 2010. Revealing fine scale subpopulation structure in the Vietnamese H'mong cattle breed for conservation purposes. BMC Genet. 11:45.
29 Bradley, D. G., D. E. MacHugh, P. Cunningham and R. T. Loftus. 1996. Mitochondrial diversity and the origins of African and European cattle. Proc. Natl. Acad. Sci. USA. 93:5131-5135.   DOI   ScienceOn
30 Bradley, D. G. and D. A. Magee. 2006. Genetics and the origins of domestic cattle. In: Documenting domestication: new genetic and archaeological paradigms (Ed. M. A. Zeder, D. G. Bradley, E. Emshwiller and B. D. Smith). London: University of California Press. pp. 317-328.
31 FAO (Food and Agriculture Organization of the United Nations). 2007a. Global plan of action for animal genetic resources and the interlaken declaration. available at http://www.fao.org/docrep/010/a1404e/a1404e00.htm.
32 Bruford, M. W., D. G. Bradley and G. Luikart. 2003. DNA markers reveal the complexity of livestock domestication. Nat. Rev. Genet. 4:900-910.   DOI   ScienceOn
33 Cai, X., H. Chen, C. Lei, S. Wang, K. Xue and B. Zhang. 2007. mtDNA diversity and genetic lineages of eighteen cattle breeds from Bos taurus and Bos indicus in China. Genetica 131:175-183.   DOI