Molecular Genetic Evaluation of Korean Native Pig Populations Based on Microsatellite Markers

초위성체 표지를 이용한 한국재래돼지 집단의 분자유전학적 고찰

  • 이풍연 (농촌진흥청 국립축산과학원) ;
  • 위미순 (농촌진흥청 국립축산과학원) ;
  • 고응규 (농촌진흥청 국립축산과학원) ;
  • 손준규 (농촌진흥청 국립축산과학원) ;
  • 이승수 (농촌진흥청 국립축산과학원) ;
  • 진현주 (농촌진흥청 국립축산과학원) ;
  • 연성흠 (농촌진흥청 국립축산과학원) ;
  • 유용희 (농촌진흥청 국립축산과학원) ;
  • 조창연 (농촌진흥청 국립축산과학원)
  • Received : 2010.10.01
  • Accepted : 2010.11.04
  • Published : 2011.02.28


The study was conducted to select and optimize microsatellite (MS) markers for evaluation of Korean native pig (KNP) populations in order to provide standard for the classification and breed definition of the indigenous breeds. The study also aimed to characterize and classify each KNP populations. A total of 648 pigs from 17 pig populations including six KNP, four Chinese native pig and four commercial pig populations were analyzed with 26 MS markers. KNP populations formed separate cluster from those of Chinese native pig and introduced pig populations. Expected heterozygosity (He) of KNP populations were 0.48~0.55 except two populations with 0.65. Genetic distances between KNP populations were relatively shorter: 0.12-0.34. Among six KNP populations, three showed high genetic uniformity, two showed lower uniformity and one showed high level of impurity and heterozygosity. The results can be used to evaluate and manage animal genetic resources at national scale.


Korean native pig;Sus scrofa;Heterozygosity;Microsatellite


  1. Alexander, L. J., Rohrer, G. A. and Beattie, C. W. 1996. Cloning and characterization of 414 polymorphic porcine microsatellites. Animal Genetics 27:137-148.
  2. Cheong, I. C., Oh, S. J., Kim, T. H., Yoon, D. H., Park, E. W., Chung, H. Y., Choi, B. H., Lee, J. W., Cho, Y. M., Chung, H. W., Lee, H. K. and Choi, Y. H.. 2003. Genetic Mapping of QTL for Major Economical Genes in Pig. Final Report. Ministry of Agriculture and Forestry - Special Grants Research Program
  3. Falush, D., Stephens, M. and Pritchard, J. K. 2003. Inference of Population Structure Using Multilocus Genotype Data: Linked Loci and Correlated Allele Frequencies. Genetics 164:1567-1587.
  4. Felsenstein, J. 1993. PHYLIP (Phylogeny Inference Package) Version 3.5c.
  5. Han, S. H., Shin, K. Y., Lee, S. S., Ko, M. S., Jeong, D. K., Jeon, J. T. and Cho, I. C. 2008. Effects of ADCYP1R1, FABP3, FABP4, MC4R, MYL2 Genotypes on Growth Traits in $F_2$ Population Between Landrace and Jeju Native Black Pig. J Anim Sci Tech 52: 621-632.
  6. ISAG/FAO, 2004. Guidelines for Development of National Farm Animal Genetics Resources Management Plans. Measurement of Domestic Animal Diversity (MoDAD): Recommended Microsat- ellite Markers Recommendations of joint ISAG/FAO Standing Committee.
  7. Kim, M. J., Li, G. H., Oh, J. D., Cho, K. H., Jeon, G. J., Choi, B. H., Lee, J. H., Hong, Y. S., Kong, H. S. and Lee, H. K. 2007. Characterization of a Korean Traditional Porcine Breed Using Microsatellite Markers and the Establishment of an Individual Identification System. Korean J. Food Sci. Anim. Resour. 27: 150-156
  8. Kim, S. W., Li, X., Lee, Y. M., Kim, J. J., Kim, T. H., Choi, B. H. and Kim, K. S., 2010. Development of SNP Markers for Domestic Pork Traceability. J Anim Sci Tech 52: 91-96.
  9. Lee, P., Cho, C. Y., Ko, Y. G., Kim, S. W., Yeon, S. H., Moon, S. S., Jung, D. W., Wee, M. S., Choi, S. H. and Yoo, Y. H. Maternal Molecular Genetic Characterization of Korean Native Pigs. Proceedings of 2010 Annual Congress of KSAST. PA10057 p.67.
  10. Lopez-Corrales, N. L., Beattie, C. W. and Rohrer, G. A. 1999. Cytogenetic assignment of 53 microsatellites from the USDAMARC porcine genetic map. Cytogenet Cell Genet 84:140-144.
  11. Miller, S. A., Dykes, D. D. and Polesky, H. F. 1988. A simple salting out procedure for extracting DNA from human nucleated cells. Nucl. Acids Res. 16:-1215.
  12. AGRP. 1998. Primers from U.S. Pig Genome Coordination Project.
  13. Nei, M. 1973. Analysis of Gene Diversity in Subdivided Populations. Proceedings of the National Academy of Sciences of the United States of America 70:3321-3323.
  14. NOta, T. 1993. DISPAN: Genetic Distance And Phylogenetic Analysis. Pennsylvania State University.
  15. Park, S. D. E. 2001. Trypanotolerance in West African Cattle and the Population Genetic Effects of Selection [Ph.D. thesis]. University of Dublin.
  16. J. K., Stephens, M. and Donnelly, P. 2000. Inference of Population Structure Using Multilocus Genotype Data. Genetics 155: 945-959.
  17. Rohrer, G. A., Alexander, L. J., Hu, Z., Smith, T. P., Keele, J. W. and Beattie, C. W. 1996. A comprehensive map of the porcine genome. Genome Research 6:371-391.
  18. Rohrer, G. A., Alexander, L. J., Keele, J. W., Smith, T. P. and Beattie, C. W. 1994. A Microsatellite Linkage Map of the Porcine Genome. Genetics 136:231-245.
  19. Roslin Bioinformatics Group, ArkDB database system. The Roslin Institute.
  20. Ruyter, D., Verstege, A. J. M., van der Poel, J. J. and Groenen, M. A. M. 1994. Five porcine polymorphic microsatellite markers. Animal Genetics 25:53-53
  21. Saitou, N. and Nei, M. 1987. The neighbor‐joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4: 406-425.
  22. Vignal, A., Milan, D., SanCristobal, M. and Eggen, A. 2002. A review on SNP and other types of molecular markers and their use in animal genetics. Genetics Selection Evolution 34:275-305.
  23. Yerle, M., Lahbib-Mansais, Y., Mellink, C., Goureau, A., Pinton, P., Echard, G., Gellin, J., Zijlstra, C., Haan, N., Bosma, A. A., Chowdhary, B., Gu, F., Gustavsson, I., Thomsen, P. D., Christensen, K., Rettenberger, G., Hameister, H., Schmittz, A., Chaput, B. and Frelat, G. 1995. The PiGMaP consortium cytogenetic map of the domestic pig (Sus scrofa domestica). Mammalian Genome 6:176-186.
  24. Yerle, M., Lahbib-Mansais, Y., Pinton, P., Robic, A., Goureau, A., Milan, D. and Gellin, J. 1997. The cytogenetic map of the domestic pig (Sus scrofa domestica). Mammalian Genome 8:592-607.
  25. Yoon, D. H., Kong, H. S., Oh, J. D., Lee, J. H., Cho, B. W., Kim, J. D., Jeon, K. J., Jo, C. Y., G., Jeon, J. and Lee, H. K. 2005. Establishment of an Individual Identification System Based on Microsatellite Polymorphisms in Korean Cattle (Hanwoo). AsianAust. J. Anim. Sci. 18:762-766.
  26. Jin, H. J. 2007. Molecular Genetic Characterization and Utilization of Native Pigs. Symposium on the Utilization of Native Pigs.

Cited by

  1. Whole-genome resequencing analyses of five pig breeds, including Korean wild and native, and three European origin breeds vol.22, pp.4, 2015,