Abstract
Eight goat breeds from Chengdu, Lezhi, Jintang, Baiyu, Yingshan, Hejiang, Jiangan, and Jialing in Sichuan, China were analyzed for genetic diversity using AFLP markers. A total of 261 individuals were analyzed using eight selective AFLP primer combinations which generated 174 discernible fragments, of which 80 were polymorphic with an average of 27.15 bands per primer pair. Shannon’s gene diversity index among breeds ranged from 0.0888 to 0.2289, and the highest and the lowest gene diversity index among breeds were the Yingshan Black goat (0.2289) and the Baiyu Black goat (0.0888), respectively. The genetic distance (DR) among eight goat breeds were calculated by Rogers’ genetic distance. Based on the analytical results, systematic trees were constructed by using the unweighted pair-group method with arithmetic average (UPGMA) and the neighbor joining (NJ) methods. Eight breeds were divided into two main clusters by using cluster analysis, one of which including two subclusters. The clustering results agreed well with the origin of the goats and geographic distribution. The results implied that AFLP markers were informative and could provide significant insights for genetic diversity research and genetic resource conservation of indigenous goals.
Similar content being viewed by others
References
Li, X.L. and Alessio, V., Genetic diversity of Chinese indigenous goat breeds based on microsatellite markers, J. Anim. Breed. Genet., 2004, vol. 121, no. 5, pp. 350–355.
Salles, P.A., Santos, S.C., Rondina, D., et al., Genetic variability of six indigenous goat breeds using major histocompatibility complex-associated microsatellite markers, J. Vet. Sci., 2011, vol. 12, no. 2, pp. 127–132.
Li, M.H., Zhao, S.H., Bian, C., et al., Genetic relationships among twelve Chinese indigenous goat breeds based on microsatellite analysis, Genet. Sel. Evol., 2002, vol. 34, no. 6, pp. 729–744.
Kim, K.S., Yeo, J.S., Lee, J.W., et al., Genetic diversity of goats from Korea and China using microsatellite analysis, Asian. Austral. J. Anim., 2002, vol. 15, no. 4, pp. 461–465.
Ajmone-Marsan, P., Negrini, R., Milanesi, E., et al., Genetic distances within and across cattle breeds as indicated by biallelic AFLP markers, Anim. Genet., 2002, vol. 33, no. 4, pp. 280–286.
Negrini, R., Nijman, I.J., Milanesi, E., et al., Differentiation of European cattle by AFLP fingerprinting, Anim. Genet., 2007, vol. 38, no. 1, pp. 60–66.
Negrini, R., Milanesi, E., Colli, L., et al., Breed assignment of Italian cattle using biallelic AFLP-markers, Anim. Genet., 2007, vol. 38, no. 2, pp. 147–153.
Kim, K.S., Yeo, J.S., and Kim, J.W., Assessment of genetic diversity of Korean native pig (Sus scrofa) using AFLP markers, Genes. Genet. Syst., 2002, vol. 77, no. 5, pp. 361–368.
Wimmers, K., Murani, E., Ponsuksili, S., et al., Detection of quantitative trait loci for carcass traits in the pig by using AFLP, Mamm. Genome, 2002, vol. 13, no. 4, pp. 206–210.
Foulley, J.L., Van Schriek, M.G.M., Alderson, L., et al., Genetic diversity analysis using lowly polymorphic dominant markers: the example of AFLP in pigs, J. Hered., 2006, vol. 97, no. 3, pp. 244–252.
Mirhoseini, S.Z., Badbarin, N., and Khaleghzadegan, A., An AFLP male-specific marker detected in 15 Iranian sheep and goats breeds, Life Sci. J., 2012, vol. 9, no. 3.
Hoda, A., Ajmone-Marsan, P., Dobi, P., et al., Genetic diversity in Albanian sheep breeds estimated by AFLP markers, A. J. A. S., 2010, vol. 9.
Xiao, F., Fu, Y., Shi, T., et al., Six local sheep breeds AFLP analysis of genetic diversity in Xinjiang, Zhong-guo Xumu Shouyi, 2009, vol. 36, no. 10, pp. 93–98.
Jiang, M.F. and Jiang, Q., AFLP analysis of genetic diversity in MaiWa Bos grunniens, Sichuan Anim. Vet. Sci., 2003, vol. 30, no. 11, pp. 20–21.
Tikhonova, N.A., Polezhaeva, M.A., and Pimenova, E.A., AFLP analysis of the genetic diversity of closely related Rhododendron species of the section Rhodorastra (Ericaceae) from Siberia and the Far East of Russia, Russ. J. Genet., 2012, vol. 48, no. 10, pp. 985–992.
Reunova, G.D., Kats, I.L., Muzarok, T.I., et al., Population genetic structure of wild-growing ginseng (Planax ginseng C.A. Meyer) assessed using AFLP markers, Russ. J. Genet., 2012, vol. 48, no. 3, pp. 291–301.
Kutlunina, N.A., Polezhaeva, M.A., and Permyakova, M.V., Morphologic and AFLP analysis of relationships between tulip species Tulipa biebersteiniana (Liliaceae), Russ. J. Genet., 2013, vol. 49, no. 4, pp. 401–410.
Kholina, A.B., Nakonechnaya, O.V., Yakubov, V.V., et al., Genetic variation in six species of the genus Oxytropis DC. (Fabaceae) from Kamchatka Peninsula, Russ. J. Genet., 2013, vol. 49, no. 10, pp. 1021–1029.
Reunova, G.D., Kats, I.L., Muzarok, T.I., et al., Polymorphism of RAPD, ISSR and AFLP markers of the Panax ginseng C.A. Meyer (Araliaceae) genome, Russ. J. Genet., 2010, vol. 46, no. 8, pp. 938–947.
Huang, C.W., Cheng, Y.S., Rouvier, R., et al., Duck (Anas platyrhynchos) linkage mapping by AFLP finger-printing, Genet. Sel. Evol., 2009, vol. 41, no. 1, p. 28.
Sambrook, J. and Russel, D.W., Molecular Cloning: A Laboratory Manual, Cold Spring Harbor: Cold Spring Harbor Lab. Press, 2001, 3rd ed.
Van der Lee, T., De Witte, I., Drenth, A., et al., AFLP linkage map of the oomycete Phytophthora infestans, Fungal Genet. Biol., 1997, vol. 21, no. 3, pp. 278–291.
Schnell, R.J., Olano, C.T., Campbell, R.J., et al., AFLP analysis of genetic diversity within a jackfruit germplasm collection, Sci. Hortic. (Amsterdam), 2001, vol. 91, nos. 3–4, pp. 261–274.
Kladmook, M., Chidchenchey, S., and Keeratinijakal, V., Assessment of genetic diversity in cassumunar ginger (Zingiber cassumunar Roxb.) in Thailand using AFLP markers, Breed. Sci., 2010, vol. 60, no. 4, pp. 412–418.
Merril, C.R., Silver staining of proteins and DNA, Nature, 1990, vol. 343, pp. 779–780.
Rogers, J.S., Measures of genetic similarity and genetic distance, Univ. Texas Publ., 1972, no. 7213, pp. 145–153.
Rao, C.R., Diversity: its measurement, decomposition, apportionment and analysis, Sankhya, Ser. A, 1982, pp. 1–22.
Keylock, C.J., Simpson diversity and the Shannon-Wiener index as special cases of a generalized entropy, Oikos, 2005, vol. 109, no. 1, pp. 203–207.
Wang, J., Chen, M., and Huatai, C.R., et al., Polymorphism research of microsatellite DNA in nine Sichuan black goat breeds, Acta Vet. Zootech. Sin., 2006, vol. 37, no. 11, pp. 124–129.
Saira, S. and Hideyuki, M., Polymorphism and evolutionary profile of mtDNA control region inferred from the sequences of Pakistani goats, Anim. Sci. J., 2004, vol. 75, no. 4, pp. 303–309.
Sultana, S., Mannen, H., and Tsuji, S., Mitochondrial DNA diversity of Pakistani goats, Anim. Genet., 2003, vol. 34, no. 6, pp. 417–421.
Li, M.H., Zhao, S.H., Bian, C., et al., Genetic relationships among twelve Chinese indigenous goat breeds based on microsatellite analysis, Genet. Sel. Evol., 2002, vol. 34, no. 6, pp. 729–744.
Author information
Authors and Affiliations
Corresponding author
Additional information
The article is published in the original.
Rights and permissions
About this article
Cite this article
Liu, Y.L., Cheng, M., Jiang, M.F. et al. Genetic diversity analysis of eight indigenous goat breeds (groups) in China using AFLP markers. Russ J Genet 50, 1294–1301 (2014). https://doi.org/10.1134/S1022795414120060
Received:
Published:
Issue Date:
DOI: https://doi.org/10.1134/S1022795414120060