Abstract
The present study intends to survey the genetic variability of an endangered semiferal Portuguese native pony breed, the Garrano. Thirteen microsatellite markers were examined in 277 animals born in 1998, belonging to eight subpopulations corresponding to eight northern Portuguese geographic regions. Mean heterozygosity (Ho) in the Garrano breed was 0.732, ranging from 0.531 to 0.857 across subpopulations. Allelic frequencies and diversity differed significantly between regions, suggesting the existence of genetic differentiation within the breed confirmed by the population differentiation estimator FST. Allele sharing genetic distance (Dps) was used to determine the relationship between the analyzed subpopulations, some of which are diverging significantly from the others. Relationships among six Iberian horse breeds (including the Garrano) were assessed through the restricted maximum likelihood method, which clusters the Garrano with another Celtic pony, the Spanish Asturcon, traditionally bred in geographical continuity with the Garrano. Results reveal a statistically significant deficit of heterozygotes within the Garrano breed (FIT = 0.031, p < 0.05). Regular monitoring should therefore be implemented so that the effect of genetic drift within subpopulations, enhanced by inbreeding, may be successfully minimized.
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References
Andrade, Rd' (1938). Garranos. Bol. Pecuário 6:281–292.
Behara, A. M., Colling, D. T., Cothran, E. G., and Gibson, J. P. (1998). Genetic relationships between horse breeds based on microsatellite data: Applications for livestock conservation. Sixth World Congr. Appl. Livestock Prod. 28:119–123.
Bentzen, P., Taggart, C. T., Ruzzante, D. E., and Cook, D. (1996). Microsatellite polymorphism and the population structure of Atlantic cod (Gadus morhua) in the northwest Atlantic. Can. J. Fish. Aquat. Sci. 53:2706–2721.
Binns, M. M., Holmes, N. G., Holliman, A., and Scott, A. M. (1995). The identification of polymorphic microsatellite loci in the horse and their use in thoroughbred parentage testing. Br. Vet. J. 151: 9–16.
Blott, S., Williams, J., and Haley, C. (1998). Genetic relationships among European cattle breeds. Anim. Genet. 29:273–282.
Bowcock, A. M., Linares, A. R., Tomforde, J., Minch, E., Kidd, J. R., and Cavalli-Sforza, L. L. (1994). High resolution of human evolutionary trees with polymorphic microsatellites. Nature 398:445–457.
Breen, H., Downs, P., Irwin, Z., and Bell, K. (1994). Intrageneric amplification of horse microsatellite markers with emphasis on the Przewalski's horse (E. przewalskii). Anim. Genet. 25:401–405.
Cañon, J., Checa, M. L., Carleos, C., Vega-Pla, J. L., Vallejo, M., and Dunner, S. (2000). The genetic structure of Spanish Celtic horse breeds inferred from microsatellite data. Anim. Genet. 31:39–48.
Checa, M., Dunner, S., Martin, J., Vega, J., and Cañon, J. (1998). A note on the characterization of a small Celtic pony breed. J. Anim. Breed. Genet. 115:157–163.
Coogle, L., Reid, R., and Bailey, E. (1996). Equine dinucleotide repeat loci LEX015-LEX024. Anim. Genet. 27:211–222.
Dunner, S., Checa, M. L., Gutierrez, J. P., Martin, J. P., and Cañon, J. (1998). Genetic analysis and management in small populations: The Asturcon pony as an example. Genet. Sel. Evol. 30:1–9.
Ellegren, H., Johansson, M., Sandberg, K., and Andersson, L. (1992). Cloning of highly polymorphic microsatellites in the horse. Anim. Genet. 23:133–142.
Felsenstein, J. (1981). Evolutionary trees from gene frequencies and quantitative characters: Finding maximum likelihood estimates. Evolution 35:1229–1242.
Felsenstein, J. (1993). PHYLIP (Phylogeny Inference Package) version 3.5c, distributed by the author, Department of Genetics, University of Washington, Seattle.
Frankham, R., Ballou, J. D., and Biscoc, D. A. (2002). Introduction to Conservation Genetics. Cambridge University Press, Cambridge, UK.
Galal, S., and Hammond, K. (1996). The global program for the management of farm animal genetic resources. In Third Iberoamerican Congress on Native and Creole Breeds, 25–30 November, Santa Fe de Bogota D.C., Colombia, available at www.corpoica. org.co/html/planes/cong3gan/galal.html.
Gama, L. T., and Delgado, J. V. (2000). Factores a considerar na definição do estatuto de risco de uma raça. In Second Congresso Ibérico sobre Recursos Genéticos Animais, 19 e 20 de Outubro, Estação Zootécnica Nacional, Portugal.
Gomes, J. C., and Oom, M. M. (2000). Caracterizção demográfica do núcleo de garranos bravios do PNPG. Rev. Port. Zootecnia 7(1):67–78.
Goudet, J. (2000). FSTAT: Programme to Estimate and Test Gene Diversities and Fixation Indices (version 2.9.1), available at www.unil.ch/izea/softwares/fstat.html. Update from Goudet (1995).
Guérin, G., Bertaud, M., and Amigues, Y. (1994). Characterization of seven new horse microsatellites: HMS1, HMS2, HMS3, HMS5, HMS6, HMS7, and HMS8. Anim. Genet. 25:62.
Hanslik, S., Harr, B., Brem, G., and Schlötterer, C. (2000). Microsatellite analysis reveals substantial genetic differentiation between contemporary New World and Old World Holstein Friesian populations. Anim. Genet. 31:31–38.
Kimura, M., and Crow, J. F. (1964). The number of alleles that can be maintained in a finite population. Genetics 49:725–738.
Lacy, R. C. (1994). Managing genetic diversity in captive populations of animals. In Bowles, M. L. and Whelan, C. J. (eds.), Restoration of Endangered Species, Cambridge University Press, Cambridge, UK, pp. 63–89.
Luís, C., Bastos-Silveira, C., Cothran, E. G., and Oom, M. M. (2002a). Variation in the mitochondrial control region sequence between the two maternal lines of the Sorraia horse breed. Genet. Mol. Biol. 25:309–311.
Luís, C., Cothran, E. G., and Oom, M. M. (2002b). Microsatellites in Portuguese autochthonous horse breeds: Usefulness for parentage testing. Genet. Mol. Evol. 25:131–134.
Luís, C., Coutinho, C., Malta-Vacas, J., Morais, J., and Oom, M. M. (2000). Genetic diversity analysis of the three Portuguese native horse breeds inferred from microsatellite data. In 27th International Conference on Animal Genetics, 22–26 July, Food Animal Biotechnology Center, College of Veterinary Medicine, University of Minnesota.
MacHugh, D. E. (1996). Molecular Biogeography and Genetic Structure of Domesticated Cattle, PhD Thesis, Department of Genetics, Trinity College, University of Dublin, Ireland.
MacHugh, D. E., Loftus, R. T., Cunningham, P., and Bradley, D. G. (1998). Genetic structure of seven European cattle breeds assessed using 20 microsatellite markers. Anim. Genet. 29:333–340.
Marklund, S., Ellegren, H., Eriksson, S., Sandberg, K., and Anderson, L. (1994). Parentage testing and linkage analysis in the horse using a set of highly polymorphic microsatellites. Anim. Genet. 25:19–23.
Marshall, T. C., Slate, J., Kruuk, L. E., and Pemberton, J. M. (1998). Statistical confidence for likelihood-based paternity inference in natural populations. Mol. Ecol. 7:639–655.
Martinez-Sáiz, J. M., Valera, M., Vega-Pla, J. L., Rodriguez-Gallardo, P. P., Molina, A., and Rodero, A. (2000). Characterization of the Losino Horse and phylogenetic proximity with the principal American equine breeds. In Conference Abstract Book of the 27th International Conference on Animal Genetics, 22–26 July. Minneapolis, MN.
Minch, E., Ruiz-Linares, A., Goldstein, D., Feldman, M., and Cavalli-Sforza, L. L. (1995). Microsat (Version 1.4d): A Computer Program for Calculating Various Statistics on Microsatellite Allele Data, available at http://crick.stanford.edu/microsat.
Montgomery, G., and Sise, J. (1990). Extraction of DNA from sheep white blood cells. N.Z. J. Agric. Res. 33:437–441.
Morais, J., Malta-Vacas, J., Luís, C., and Oom, M. M. (2003). Genetic diversity of two subpopulations of the Lusitano horse (Portugal). C. R. Biol. 326:S217–S221.
Oom, M. M. (1992). O cavalo Lusitano: Uma raça em recuperação, PhD Thesis, Department of Zoology and Anthropology, Faculty of Sciences, University of Lisbon, Portugal.
Oom, M. M. (2000a). A genealogia do Garrano. In Associação dos Criadores de Equinos de Raça Garrana (eds.), Os Milenios do Garrano, Vieira do Minho, Portugal, pp. 77–79.
Oom, M. M. (2000b). A genética molecular na produção cavalar em Portugal. In Jornadas de Equinicultura, 2 e 3 de Março, Vila Real, Portugal.
Oom, M. M., and Cothran, E. G. (1996). Preliminary study of genetic variation of a feral pony from Portugal: The Garrano. Anim. Genet. 27(Suppl. 2):17–42.
Portas, M. C., and Leite, J. M. (2000). Livro Genealógico dos Equinos de Raça Garrana. In Second Congresso Ibérico sobre Recursos Genéticos Animais, 19 e 20 de Outubro, Estação Zootécnica Nacional, Santarém, Portugal.
Portas, M. C., Leite, J. M., and Sousa, J. J. (1998). A raça Garrana. Um contribute para o seu estudo. Vet. Téch. 8:18–26.
Portas, M. C., Vieira-e-Brito, N., Silva-Carvalho, I., and Vieira-Leite, J. M. (2001). La conservatión de la raza equina Garrana. Arch. Zootec. 50:171–179.
Raymond, M., and Rousset, F. (1995). GENEPOP (Version 1.2): Population genetics software for exact tests and ecurnenicism. J. Hered. 86:248–249.
Saitbekova, N., Gaillard, C., Obexer-Ruff, G., and Dolf, G. (1999). Genetic diversity in Swiss goat breeds based on microsatellite analysis. Anim. Genet. 30:36–41.
Scanalytics (1996). RFLPScan Plus Version 3.0, Scanalytics, CSP.
Solis, A., Jugo, B., Rendo, F., and Estonba, A. (2000). Genetic diversity and genetic distances in threatened horse breeds from western Pyrenees by microsatellites. In Conference Abstract Book of the 27th International Conference on Animal Genetics, 22–26 July, Minneapolis, MN.
Van Haeringen, H., Bowling, A. T., Stott, M. L., Lenstra, J. A., and Zwaagstra, K. A. (1994). A highly polymorphic horse microsatellite locus: VHL20. Anim. Genet. 25:207.
Vega-Pla, J. L., Alcaide, B., and Rodriguez-Gallardo, P. P. (2000). Relationships among the Spanish Pure Breed and other horses bred in Spain. In Conference Abstract Book of the 27th International Conference on Animal Genetics, 22–26 July, Minneapolis, MN.
Vilà, C., Leonard, J. A., Gotherstrom, A., Marklund, S., Sandberg, K., Liden, K., Wayne, R. K., and Ellegren, H. (2001). Widespread origins of domestic horse lineages. Science 291:474–477.
Weir, B. S., and Cockerham, C. C. (1984). Estimating F-statistics for the analysis of population structure. Evolution 38:1358–1370.
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Morais, J., Oom, M.M., Malta-Vacas, J. et al. Genetic Structure of an Endangered Portuguese Semiferal Pony Breed, the Garrano. Biochem Genet 43, 347–364 (2005). https://doi.org/10.1007/s10528-005-6775-1
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DOI: https://doi.org/10.1007/s10528-005-6775-1