Genetic diversity of local cattle*

* Preliminary report presented: Common breeding history of differ - ent cattle breeds based on high-throughput genotyping data. 6th Central European Congress of Life Sciences. EUROBIOTECH, 11–14 September 2017, Krakow, Poland

  • Veronika Kukučková Slovak University of Agriculture in Nitra
  • Nina Moravčíková Slovak University of Agriculture in Nitra, Faculty of Agrobiology and Food Resources, Department of Animal Genetics and Breeding Biology, Nitra, Slovak Republic;
  • Ino Curik University of Zagreb, Department of Animal Science, Zagreb, Croatia
  • Mojca Simčič University of Ljubljana, Department of Animal Science, Ljubljana, Slovenia
  • Gábor Mészáros University of Natural Resources and Life Sciences, Division of Livestock Sciences, Vienna, Austria
  • Radovan Kasarda Slovak University of Agriculture in Nitra, Faculty of Agrobiology and Food Resources, Department of Animal Genetics and Breeding Biology, Nitra, Slovak Republic


The Slovak Pinzgau breed faces the bottleneck effect and the loss of diversity due to unequal use of founders and significant population decline. Further population size reduction can lead to serious problems. High-throughput genotypes of 179 individuals were used to characterise genetic diversity and differentiation of Slovak Pinzgau, Austrian Pinzgau, Cika and Piedmontese cattle by Bayesian clustering algorithm. A gene flow network for the clusters estimated from admixture results was produced. The low estimate of genetic differentiation (FST) in Pinzgau cattle populations indicated that differentiation among these populations is low, particularly owing to a common historical origin and high gene flow. The changes in the log marginal likelihood indicated Austrian Pinzgau as the most similar breed to Slovak Pinzgau. All populations except Piedmontese showed two ways of gene flow among populations indicating that Piedmontese was involved in formation of analysed breeds while these breeds were not involved in creation of Piedmontese. Genetic evaluation represents an important tool in breeding and cattle selection. It is more strategically important than ever to preserve as much of the livestock diversity as possible, to ensure a prompt and proper response to the needs of future generations. The information provided by the fine-scale genetic characterization of this study clearly shows that there is a difference in genetic composition of Slovak and Austrian populations as well as Cika and Piedmontese. Slovak Pinzgau cattle despite its population size has the potential to serve as a basic gene reserve of this breed with the European and World importance.

Author Biography

Veronika Kukučková, Slovak University of Agriculture in Nitra
Department of Animal Genetics and Breeding Biology


Achmann R, Curik I, Dovc P, Kavar T, Bodo I, Habe F, Marti E, Sölkner J, Brem G (2004) Microsatellite diversity, population subdivision and gene flow in the Lipizzan horse. Anim Genet 35: 4: 285-292. doi:

Allendorf FW, Hohenlohe PA, Luikart G (2010) Genomics and the future of conservation genetics. Genetics 11: 697-709. doi:

Beerli P, Felsenstein J (2001) Maximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach. Proceedings of the National Academy of Sciences of the United States of America 98: 4563-4568.

Bruford MW, Bradley DG, Luikart G (2003) DNA markers reveal the complexity of livestock domestication. Nature 4: 900-910. doi:

Corander J, Marttinen P, Sirén J, Tang J (2008) Enhanced Bayesian modelling in BAPS software for learning genetic structures of populations. BMC Bioinformatics 9: 539. doi:

Felius M, Beerling M-L, Buchanan DS, Theunissen B, Koolmees PA, Lenstra JA (2014) On the History of Cattle Genetic Resources. Diversity 6: 705-750. doi:

Ferenčaković M, Sölkner J, Curik I (2013) Estimating Autozygosity from High-Throughput Information: Effects of SNP Density and Genotyping Errors. Genet Sel Evol 45: 1: 42. doi:

Kasarda R, Mészáros G, Kadlečík O, Hazuchová E, Šidlová V, Pavlík I (2014) Influence of mating systems and selection intensity on the extent of inbreeding and genetic gain in the Slovak Pinzgau cattle. Czech J Anim Sci 59: 5: 219-226.

Kukučková V, Moravčíková N, Ferenčaković M, Simčič M, Mészáros G, Sölkner J, Trakovická A, Kadlečík O, Curik I, Kasarda R (2017) Genomic characterization of Pinzgau cattle: genetic conservation and breeding perspectives. Conserv Genet 18: 4: 893-910. doi:

Loiseau L, Richard M, Garnier S, Chastel O, Julliard R, Zoorob R, Sorci G (2009) Diversifying selection on MHC class I in the house sparrow (Passer domesticus). Mol Ecol 18: 1331-1340. doi:

McTavish EJ, Decker JE, Schnabel RD, Taylor JF, Hillis DM (2013a) New World cattle show ancestry from multiple independent domestication events. PNAS 110: 15: E1398-E1406. doi:

McTavish EJ, Decker JE, Schnabel RD, Taylor JF, Hillis DM (2013b) New World cattle show ancestry from multiple independent domestication events. Dryad Digital Repository. doi:

Mészáros G, Boison SA, Pérez O'Brien AM, Ferenčaković M, Curik I, da Silva MVB, Utsunomiya YT, Garcia JF, Sölkner J (2015) Genomic analysis for managing small and endangered populations: A case study in Tyrol Grey cattle. Front Genet 6: 173. doi:

Miluchová M, Gábor M, Trakovická A (2014) Analysis of genetic structure in Slovak Pinzgau cattle using five candidate genes related to milk production traits. Genetika 46: 3: 865-875. doi:

Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MAR, Bender D, Maller J, Sklar P, de Bakker PIW, Daly MJ., Sham PC (2007) PLINK: a toolset for whole-genome association and population-based linkage analysis. Am J Hum Genet 81: 559-575. doi:

Simčič M, Smetko A, Sölkner J, Seichter D, Gorjanc G, Kompan D, Medugorac I (2015) Recovery of Native Genetic Background in Admixed Populations Using Haplotypes, Phenotypes, and Pedigree Information – Using Cika Cattle as a Case Breed. PLoS ONE 10: 4: e123253. doi:

Taberlet P, Valentini A, Rezaei HR, Naderi S, Pompanon F, Negrini R, AjmoneMarsan P (2008) Are cattle, sheep, and goats endangered species? Mol Ecol 17: 275-284. doi:

Tang J, Hanage WP, Fraser Ch, Corander J (2009) Identifying Currents in the Gene Pool for Bacterial Populations Using an Integrative Approach. PLoS Comput Biol 5: 8: e1000455. doi:

Trakovická A, Moravčíková N, Kasarda R (2013) Genetic polymorphisms of leptin and leptin receptor genes in relation with production and reproduction traits in cattle. Acta Biochim Pol 60: 4: 783-787.