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Investigating the population structure and genetic differentiation of livestock guard dog breeds

  • D. Bigi (a1), S.P. Marelli (a2), L. Liotta (a3), S. Frattini (a2), A. Talenti (a2), G. Pagnacco (a2), M. Polli (a2) and P. Crepaldi (a2)...
Abstract

Livestock guarding dogs are a valuable adjunct to the pastoral community. Having been traditionally selected for their working ability, they fulfil their function with minimal interaction or command from their human owners. In this study, the population structure and the genetic differentiation of three Italian livestock guardian breeds (Sila’s Dog, Maremma and Abruzzese Sheepdog and Mannara’s Dog) and three functionally and physically similar breeds (Cane Corso, Central Asian Shepherd Dog and Caucasian Shepherd Dog), totalling 179 dogs unrelated at the second generation, were investigated with 18 autosomal microsatellite markers. Values for the number of alleles per locus, observed and expected heterozygosity, Hardy–Weinberg Equilibrium, F stats, Nei’s and Reynold’s genetic distances, clustering and sub-population formation abilities and individual genetic structures were calculated. Our results show clear breed differentiation, whereby all the considered breeds show reasonable genetic variability despite small population sizes and variable selection schemes. These results provide meaningful data to stakeholders in specific breed and environmental conservation programmes.

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Corresponding author
E-mail: michele.polli@unimi.it
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a

These two authors contributed equally to this work.

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References
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Bigi D, Marelli SP, Randi E and Polli M 2015. Genetic characterization of four native Italian shepherd dog breeds and analysis of their relationship to cosmopolitan dog breeds using microsatellite markers. Animal 9, 19211928.
Brzustowski J 2001. GeneDist: population to population genetic distance calculator. Retrieved on 25 May 2017 from http://www2.biology.ualberta.ca/jbrzusto/GeneDist.php.
Budowle B, Garofano P, Hellman A, Ketchum M, Kanthaswamy S, Parson W, van Haeringen W, Fain S and Broad T 2005. Recommendations for animal DNA forensic and identity testing. International Journal of Legal Medicine 119, 295302.
Ceh E and Dovc P 2014. Population structure and genetic differentiation of livestock guard dog breeds from the Western Balkans. Journal of Animal Breeding and Genetics 131, 313325.
Coppinger R and Schneider R 1995. Evolution of working dogs. In: The domestic dog: its evolution, behaviour and interactions with people. Cambridge University Press, Cambridge, UK. pp. 2147.
Council of Europe 1986. European convention for the protection of vertebrate animals used for experimental and other scientific purposes CETS 123. Strasbourg. Retrieved on 18 December 2015 from http://www.coe.int/en/web/conventions/full-list/-/conventions/treaty/123.
Evanno G, Regnaut S and Goudet J 2005. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Molecular Ecology 14, 26112620.
Excoffier L and Lischer HEL 2010. Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Molecular Ecology Resources 10, 564567.
Felsenstein J 1989. PHYLIP – Phylogeny Inference Package (Version 3.2). pp. 164–166. Retrieved on 28 November 2014 from http://evolution.genetics.washington.edu/phylip/.
Gagliardi R, Llambí S, García C and Arruga MV 2011. Microsatellite characterization of Cimarron Uruguayo dogs. Genetics and Molecular Biology 34, 165168.
Goudet J 2001. FSTAT, a program to estimate and test gene diversities and fixation indices. Version 2.9.3. Retrieved on 25 May 2017 from https://www2.unil.ch/popgen/softwares/fstat.htm.
Irion DN, Schaffer AL, Famula TR, Eggleston ML, Hughes SS and Pedersen NC 2003. Analysis of genetic variation in 28 dog breed populations with 100 microsatellite markers. Journal of Heredity 94, 8187.
Irion DN, Schaffer AL, Grant S, Wilton AN and Pedersen NC 2005. Genetic variation analysis of the bali street dog using microsatellites. BMC Genetics 6, 6.
Jakobsson M and Rosenberg NA 2007. CLUMPP: a cluster matching and permutation program for dealing with label switching and multimodality in analysis of population structure. Bioinformatics 23, 18011806.
Jordana J, Piedrafita J, Sanchez A and Puig P 1992. Comparative F statistics analysis of the genetic structure of ten Spanish dog breeds. Journal of Heredity 83, 367374.
Kim KS, Tanabe Y, Park CK and Ha JH 2001. Genetic variability in East Asian dogs using microsatellite loci analysis. Journal of Heredity 92, 398403.
Kopaliani N, Shakarashvili M, Gurielidze Z, Qurkhuli T and Tarkhnishvili D 2014. Gene flow between wolf and shepherd dog populations in Georgia (Caucasus). Journal of Heredity 105, 345353.
Lee E-W, Choi S-K and Cho G-J 2014. Molecular Genetic Diversity of the Gyeongju Donggyeong dog in Korea. Journal of Veterinary Medical Science 76, 13591365.
Nei M 1972. Genetic distance between populations. The American Naturalist 106, 283292.
Parker HG 2012. Genomic analyses of modern dog breeds. Mammalian Genome 23, 1927.
Parra D, Méndez S, Cañón J and Dunner S 2008. Genetic differentiation in pointing dog breeds inferred from microsatellites and mitochondrial DNA sequence. Animal Genetics 39, 17.
Peakall R and Smouse PE 2012. GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research –an update. Bioinformatics 28, 25372539.
Pedersen N, Liu H, Theilen G and Sacks B 2012. The effects of dog breed development on genetic diversity and the relative influences of performance and conformation breeding. Journal of Animal Breeding and Genetics 130, 236248.
Pfahler S and Distl O 2013. A massive reduction of the genetic diversity in the Lundehund. Animal Genetics 45, 154.
Pritchard JK, Stephens M and Donnelly P 2000. Inference of population structure using multilocus genotype data. Genetics 155, 945959.
Reynolds J, Weir BS and Cockerham CC 1983. Estimation of the coancestry coefficient: basis for a short-term genetic distance. Genetics 105, 767779.
Rice WR 1989. Analyzing tables of statistical tests. Evolution 43, 223.
Rosenberg NA 2003. Distruct: a program for the graphical display of population structure. Molecular Ecology Notes 4, 137138.
Sechi S, Polli M, Marelli S, Talenti A, Crepaldi P, Fiore F, Spissu N, Dreger DL, Zedda M, Dimauro C, Ostrander EA, Di Cerbo A and Cocco R 2016. Fonni’s dog: morphological and genetic characteristics for a breed standard definition. Italian Journal of Animal Science 16, 2230.
Slatkin M 1995. A measure of population subdivision based on microsatellite allele frequencies. Genetics 139, 457462.
Streitberger K, Schweizer M, Kropatsch R, Dekomien G, Distl O, Fischer MS, Epplen JT and Hertwig ST 2012. Rapid genetic diversification within dog breeds as evidenced by a case study on Schnauzers. Animal Genetics 43, 577586.
Suárez NM, Betancor E, Fregel R and Pestano J 2013. Genetic characterization, at the mitochondrial and nuclear DNA levels, of five Canary Island dog breeds. Animal Genetics 44, 432441.
Vilà C, Savolainen P, Maldonado JE, Amorim IR, Rice JE, Honeycutt RL, Crandall KA, Lundeberg J and Wayne RK 1997. Multiple and ancient origins of the domestic dog. Science 276, 16871689.
Vonholdt BM, Pollinger JP, Lohmueller KE, Han E, Parker HG, Quignon P, Degenhardt JD, Boyko AR, Earl DA, Auton A, Reynolds A, Bryc K, Brisbin A, Knowles JC, Mosher DS, Spady TC, Elkahloun A, Geffen E, Pilot M, Jedrzejewski W, Greco C, Randi E, Bannasch D, Wilton A, Shearman J, Musiani M, Cargill M, Jones PG, Qian Z, Huang W, Ding Z-L, Zhang Y-P, Bustamante CD, Ostrander EA, Novembre J and Wayne RK 2010. Genome-wide SNP and haplotype analyses reveal a rich history underlying dog domestication. Nature 464, 898902.
Weir BS and Cockerham CC 1984. Estimating F-Statistics for the analysis of population structure. Evolution 38, 1358.
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