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Genetic Structure and Differentiation of Three Indian Goat Breeds

  • Dixit, S.P. (National Bureau of Animal Genetic Resources) ;
  • Verma, N.K. (National Bureau of Animal Genetic Resources) ;
  • Aggarwal, R.A.K. (National Bureau of Animal Genetic Resources) ;
  • Kumar, Sandeep (National Bureau of Animal Genetic Resources) ;
  • Chander, Ramesh (National Bureau of Animal Genetic Resources) ;
  • Vyas, M.K. (National Bureau of Animal Genetic Resources) ;
  • Singh, K.P. (National Bureau of Animal Genetic Resources)
  • Received : 2008.09.02
  • Accepted : 2009.04.02
  • Published : 2009.09.01

Abstract

Gene flow, genetic structure and differentiation of Kutchi, Mehsana and Sirohi breeds of goat from North-Western India were evaluated based on 25 microsatellite markers so as to support breed conservation and improvement decisions. The microsatellite genotyping was carried out using an automated DNA sequencer. The gene diversity across the studied loci for the Kutchi breed varied from 0.57 (ILST 065) to 0.93 (OarFCB 304, OMHC 1, ILSTS 058) with an overall mean of 0.79${\pm}$0.02. The corresponding values for Mehsana and Sirohi breeds were 0.16 (ILST 008) to 0.93 (OMHC 1, ILSTS 058) with an average of 0.76${\pm}$0.04, and 0.50 (ILSTS 029) to 0.94 (ILSTS 058) with an average of 0.78${\pm}$0.02, respectively. The Mehsana breed had lowest gene diversity among the 3 breeds studied. All the populations showed an overall significant heterozygote deficit ($F_{is}$). The Fis values were 0.26, 0.14 and 0.36 for Kutchi, Mehsana and Sirohi goat breeds, respectively. Kutchi and Mehsana were more differentiated (16%) followed by Mehsana and Sirohi (13%).The measures of standard genetic distance between pairs of breeds indicated that the lowest genetic distance was between Kutchi and Sirohi breeds (0.73) and the largest genetic distance was between Mehsana and Kutchi (1.0) followed by Sirohi and Mehsana (0.75) breeds. Mehsana and Kutchi are distinct breeds and this was revealed by the estimated genetic distance between them. All measures of genetic variation revealed substantial genetic variation in each of the populations studied, thereby showing good scope for their further improvement.

Keywords

Microsatellite Loci;Genetic Variation;Genetic Distance and Breed Assignment;Goat

References

  1. Barbujani, G., A. Magaui, E. S. Minch and L. L. Cavalli-Sfroza. 1997. An apportionment of human DNA diversity. Proceedings of the National Academy of Sciences of the USA 94:4516-4529 https://doi.org/10.1073/pnas.94.9.4516
  2. Barker, J. S. F., S. G.Tan, S. S. Moore, T. K. Mukherjee, J. L. Matheson and O. S. Selvaraj. 2001. Genetic variation within and relationships among populations of Asian goats (Capra hircus). J. Anim. Breed. Genet. 118:213-233 https://doi.org/10.1046/j.1439-0388.2001.00296.x
  3. Behl, R., N. Sheoran, J. Behl, R. K. Vijh and M. S. Tantia. 2003. Analysis of 22 heterologous microsatellite markers for genetic variability in Indian goats. Anim. Biotechnol. 14:167-175 https://doi.org/10.1081/ABIO-120026486
  4. Cornuet, J. M., S. Piry, G. Luikart, A. Estoup and M. Solignac. 1999. New methods employing multilocus genotypes to select or exclude populations as origins of individuals. Genetics 153:1-23
  5. Goldstein, D. B., A. Ruiz Linares, L. L. Cavalli-Sfroza and M. W. Feldman. 1995. An evaluation of genetic distances for use with microsatellite loci. Genetics 139:463-471
  6. Kim, K. S., J. S. Yeo, J. W. Lee, J. W. Kim and C. B. Choi. 2002. Genetic diversity of goats from Korea and China using microsatellite analysis. Asin-Aust. J. Anim. Sci. 15:461-465
  7. Lewontin, R. C. 1972. The apportionment of human diversity. Evol. Biol. 6:381-398
  8. Li, M. H., S. H. Zhao, C. Bian, H. S. Wang, H. Wei, B. Liu, M. Yu, B. Fan, S. L. Chen, M. J. Zhu, S. J. Li, T. A. Xiong and K. Li. 2002. Genetic relationships among twelve Chinese indigenous goat populations based on microsatellite analysis. Genet. Sel. Evol. 34:729-744 https://doi.org/10.1186/1297-9686-34-6-729
  9. Takezaki, N. and M. Nei. 1996. Genetic distances and reconstruction of phylogenetic tree from microsatellite DNA. Genetics 144:389-399 https://doi.org/10.1534/genetics.107.081505
  10. Goudet, J., M. Raymond, T. Demeeus and F. Rousset. 1996. Testing population differentiation in diploid populations. Genetics 144:1933-1940
  11. Kimura, M. and J. W. Crow. 1964. The number of alleles that can be maintained in a finite population. Genetics 49:725-738
  12. Kumar, D., S. P. Dixit, R. Sharma, A. K. Pandey, G. Sirohi, A. K. Patel, R. A. K. Aggarwal, N. K. Verma, D. S. Gour and S. P. S. Ahlawat. 2005. Population structure genetic variation and management of Marwari goats. Small Ruminant Research. 59:41-48 https://doi.org/10.1016/j.smallrumres.2004.11.013
  13. Saitbekova, N., C. Gaillard, G. Obexer-Ruff and G. Dolf. 1999. Genetic diversity in wiss goat breeds based on microsatellite analysis. Anim. Genet. 30:36-41 https://doi.org/10.1046/j.1365-2052.1999.00429.x
  14. Saitou, N. and M. Nei. 1987. The neighbor-joining method: A new method for reconstructing phylogenetic tree. Mol. Bio. Evol. 4:406-425
  15. Yeh, F. C., Rong-cai Yang and T. Boyle. 1999. POPGENE version 1.31. University of Alberta and Centre for International Forestry Research
  16. Ota, T. 1993. DISPAN: genetic distance and phylogenetic analysis Pennsylvania State University PA
  17. Takahashi, H., D. Nyamsamba, B. Mandakh, Yo. Zagdsuren, T. Amano, K. Nomura, M. Yokohama, S. Ito and M. Minezawa 2008. Genetic structure of Mongolian goat populations using microsatellite loci analysis. Asian-Aust. J. Anim. Sci. 21:947-953
  18. Goudet, J. 2002. FSTAT (version 2.9.3.2): A program to estimate and test gene diversities and fixation indices. F-statistics. J. Hered. 86:485-486
  19. Boyce, W. M., P. W. Hedrick, N. E. Muggli-Cockett, S. Kalinowski, M. C. Penedo and R. R. Ramey. 1996. Genetic variation of major histocompatibilty complex and microsatellite loci: a comparison in Bighorn sheep. Genetics 145:421-433
  20. Raymond, M. and F. Rousset. 1995. GENEPOP (version 1.2). Population genetics software for exact tests and ecumenicism. J. Hered. 86:248-249
  21. Chenyambuga, S. W., O. Hanotte, J. Hirbo, P. C. Watts, S. J. Kemp, G. C. Kifaro, P. S. Gwakisa, P. H. Petersen and J. E. O. Rege. 2004 Genetic characterization of indigenous goats of Subsaharan Africa using microsatellite DNA markers. Asian-Aust. J. Anim. Sci. 17:445-452
  22. FAO. 1995a. Global project for the maintenance of domestic animal genetic diversity (MoDAD). Draft Project Formulation Report. FAO, Rome, Italy
  23. Slatkin, M. 1995 A measure of population subdivision based on microsatellite allele frequency. Genetics 134:983-993
  24. Nei, M. 1972. Genetic distances between populations. Am. Nat. 106:283-292 https://doi.org/10.1086/282771
  25. Awemu-Ibeagha, E. M. and G. Erhardt. 2005. Genetic structure and differentiation of 12 African Bos indicus and Bos Taurus cattle breeds, inferred from protein and microsatellite polymorphisms. J. Anim. Breed. Genet. 122:12-20 https://doi.org/10.1111/j.1439-0388.2004.00478.x
  26. Nei, M. 1978. Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 89:583-590
  27. Wright, S. 1978. Evolution and the genetics of populations Vol. 4. Variability within and among Natural Populations. University of Chicago Press Chicago
  28. Acharya, R. M. 1982. Sheep and goat breeds of India. FAO animal production and health paper, No. 30, FAO, Rome
  29. Sneath, P. H. A. and R. R. Sokal. 1973. Numerical taxonomy. W.H. Freeman San Francisco
  30. Sambrook, J., E. F. Fritsch and T. Maniatis. 1989. Molecular Cloning: A Laboratory Manual $2^{nd}$ ed Cold spring Harbour Cold Spring Laboratory Press NY
  31. Iamartino, D., A. Bruzzone, A. Lanza, M. Blasi and F. Pilla. 2005. Genetic diversity of Southern Italian goat populations assessed by microsatellite markers. Small Ruminant Research 57:249-255 https://doi.org/10.1016/j.smallrumres.2004.08.003
  32. Jandurova, O. M., T. Kott, B. Kottova and V. Czernekova. 2004. Seven microsatellite markers useful for determining genetic variability in White and Brown Short-Haired goat breeds. Small Ruminant Research 52:271-274 https://doi.org/10.1016/S0921-4488(03)00258-X
  33. Slatkin, M. 1993. Isolation by distance in equilibrium and nonequilibrium populations. Evolution 47:264-279 https://doi.org/10.2307/2410134
  34. FAO. 1995b. World Watch List for Domestic Animal Diversity, $2^{nd}$ edn., FAO, Rome, Italy.

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