Genetic Characterization of the Yugoslavian Shepherd Dog – Sharplanina, a Livestock Guard Dog from the Western Balkans

1. Parker HG, Shearin AL, Ostrander EA: Man’s best friend becomes biology’s best in show: genome analyses in the domestic dog. Annu Rev Genet 2010, 44:309-336.10.1146/annurev-genet-102808-115200332267421047261Search in Google Scholar

2. Schoenebeck JJ, Ostrander EA: Insights into morphology and disease from the dog genome project. Annu Rev Cell Dev Bi 2014, 30:535-560.10.1146/annurev-cellbio-100913-012927551047325062362Search in Google Scholar

3. Wilcox B, Walkowicz C: Atlas of Dog Breeds of the World. 5. In: T.F.H. Publications, Neptune City; 1995.Search in Google Scholar

4. Parker HG, Kim LV, Sutter NB, Carlson S, Lorentzen TD, Malek TB, Johnson GS, DeFrance HB, Ostrander EA, Kruglyak L: Genetic structure of the purebred domestic dog. Science 2004, 304(5674):1160-1164.10.1126/science.109740615155949Search in Google Scholar

5. Lindblad-Toh K, Wade CM, Mikkelsen TS, Karlsson EK, Jaffe DB, Kamal M, Clamp M, Chang JL, Kulbokas III EJ, Zody MC, Mauceli E, Xie X, Breen M, Wayne RK, Ostrander EA, Ponting CP, Galibert F, Smith DR, deJong PJ, Kirkness E, Alvarez P, Biagi T, Brockman W, Butler J, Chin C-W, Cook A, Cuff J, Daly MJ, DeCaprio D, Gnerre S, Grabherr M, Kellis M, Kleber M, Bardeleben C, Goodstadt L, Heger A, Hitte C, Kim L, Koepfli KP, Parker HG, Pollinger JP, Searle SMJ, Sutter NB, Thomas R, Webber C, Broad Sequencing Platform members, Lander ES: Genome sequence, comparative analysis and haplotype structure of the domestic dog. Nature, 2005, 438:803–819.10.1038/nature0433816341006Search in Google Scholar

6. Boyko AR, Boyko RH, Boyko CM, Parker HG, Castelhano M, Corey L, Degenhardt J, Auton A, Hedimbi M, Kityo R, Ostrander EA, Schoenebeck J, Todhunter RJ, Jones P, Bustamante CD: Complex population structure in African village dogs and its implications for inferring dog domestication history. Proc Natl Acad Sci 2009, 106:13903–13908.10.1073/pnas.0902129106272899319666600Search in Google Scholar

7. Leroy G: Genetic diversity, inbreeding and breeding practices in dogs: results from pedigree analyses. Vet J 2011, 189(2):177-182.10.1016/j.tvjl.2011.06.01621737321Search in Google Scholar

8. Pedersen N, Liu H, Theilen G, Sacks B: The effects of dog breed development on genetic diversity and the relative influences of performance and conformation breeding. J Anim Breed Genet 2013, 130:236–248.10.1111/jbg.1201723679949Search in Google Scholar

9. Mellersh C: Give a dog a genome. Vet J 2008,178(1):46-52.10.1016/j.tvjl.2007.06.02917851102Search in Google Scholar

10. Lequarre AS, Andersson L, Andre C, Fredholm M, Hitte C, Leeb T, Lohi H, Lindblad-Toh K, Georges M. LUPA: a European initiative taking advantage of the canine genome architecture for unravelling complex disorders in both human and dogs. Vet J 2011, 189:155–159.10.1016/j.tvjl.2011.06.01321752675Search in Google Scholar

11. Jansson M, Laikre L: Recent breeding history of dog breeds in Sweden: modest rates of inbreeding, extensive loss of genetic diversity and lack of correlation between inbreeding and health. J Anim Breed Genet 2014, 131(2):153-162.10.1111/jbg.12060416670324289536Search in Google Scholar

12. Irion DN, Schaffer AL, Famula TR, Eggleston ML, Hughes SS, Pedersen NC: Analysis of genetic variation in 28 dog breed populations with 100 microsatellite markers. J Hered 2003, 94(1):81-87.10.1093/jhered/esg00412692167Search in Google Scholar

13. DeNise S, Johnston E, Halverson J, Marshall K, Rosenfeld D, Mckenna S, Sharp T, Edward SJ: Power of exclusion for parentage verification and probability of match for identity in American kennel club breeds using 17 canine microsatellite markers. Anim Gen 2004, 35:14–17.10.1046/j.1365-2052.2003.01074.x14731224Search in Google Scholar

14. Přibáňová M, Horak P, Schröffelová D, Urban T, Bechyňová R, Musilova L: Analysis of genetic variability in the Czech Dachshund population using microsatellite markers. J Anim Breed Genet 2009, 126(4):311-318.10.1111/j.1439-0388.2008.00772.x19630882Search in Google Scholar

15. Leroy G, Verrier E, Meriaux JC, Rognon X: Genetic diversity of dog breeds: between-breed diversity, breed assignation and conservation approaches. Anim Genet 2009, 40(3):333-343.10.1111/j.1365-2052.2008.01843.x19222436Search in Google Scholar

16. Gagliardi R, Silvia L, García C, Arruga MV: Microsatellite characterization of Cimarron Uruguayo dogs. Genet Mol Biol 2011, 34(1):165-168.10.1590/S1415-47572010005000101308536421637561Search in Google Scholar

17. Parker HG: Genomic analyses of modern dog breeds. Mamm Genome 2012, 23(1-2):19-27.10.1007/s00335-011-9387-6355912622231497Search in Google Scholar

18. Czyż K, Filistowicz MK, Przysiecki P, Vrtková AE: Genetic distance between three breeds of dogs based on selected microsatellite sequences. Anim Sci Pap Rep 2016, 34(1):95-102.Search in Google Scholar

19. Softić A, Velija K, Ramić J, Bajrović K, Radosavljević G, Lasić L, Kalamujić B, Šakić V, Pojskić N: Microsatellite diversity of Bosnian-Herzegovinian-Croatian shepherd dog Tornjak. Genetika, 2016, 48(1):49-56.10.2298/GENSR1601049SSearch in Google Scholar

20. Radko A, Rubiś D, Szumiec A. Analysis of microsatellite DNA polymorphism in the Tatra Shepherd Dog. J Appl Anim Res 2017, 46:254–256.10.1080/09712119.2017.1292912Search in Google Scholar

21. 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, Cocco R: Fonni’s dog: morphological and genetic characteristics for a breed standard definition. Ital J Anim Sci 2017, 16(1):22-30.10.1080/1828051X.2016.1248867Search in Google Scholar

22. Goleman M, Balicki I, Radko A, Jakubczak A, Fornal A: Genetic diversity of the Polish Hunting Dog population based on pedigree analyses and molecular studies. Livest Sci 2019, 229:114-117.10.1016/j.livsci.2019.09.017Search in Google Scholar

23. Neradilova S, Connell L, Hulva P, Bolfíková BČ: Tracing genetic resurrection of pointing dog breeds: Cesky Fousek as both survivor and rescuer. PloS one 2019, 14(8).10.1371/journal.pone.0221418670992031449543Search in Google Scholar

24. Pires AE, Amorim IR, Ginja C, Gomes M, Godinho I, Simões F, Oom M, Petrucci-Fonseca F, Matos J, Bruford MW. Molecular structure in peripheral dog breeds: Portuguese native breeds as a case study. Anim Genet 2009, 40(4):383-392.10.1111/j.1365-2052.2009.01849.x19298456Search in Google Scholar

25. Ceh E, Dovc P: Population structure and genetic differentiation of livestock guard dog breeds from the Western Balkans. J Anim Breed Genet 2014, 131(4):313-325.10.1111/jbg.1207724397417Search in Google Scholar

26. Dimitrijević V, Jovanović S, Savić M, Trailović R: Genetic polymorphism of blood proteins in Yugoslav shepherd dog. Acta Vet 2005, 55(5-6):357-365.10.2298/AVB0506357DSearch in Google Scholar

27. Dimitrijević V: Genotyping of a Yugoslav Shepherd Dog using microsatellite genetic markers, PhD dissertation, University of Belgrade, 2008.Search in Google Scholar

28. Dimitrijević V, Stevanović J, Savić M, Petrujkić B, Simeunović P, Milošević I, Stanimirović Z: Validation of 10 microsatellite loci for their use in parentage verification and individual identification in the Yugoslavian Shepherd Dog Sharplanina. Ann Anim Sci 2013, 13(4):715-722.10.2478/aoas-2013-0047Search in Google Scholar

29. Völkel I: Untersuchungen zur molekulargenetischen Rassendifferenzierung bei Canis familiaris. PhD dissertation, Humboldt-University of Berlin 2005.Search in Google Scholar

30. Peakall R, Smouse PE: GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research – an update. Bioinformatics 2012, 28:2537-2539.10.1093/bioinformatics/bts460346324522820204Search in Google Scholar

31. Botstein D, White RL, Skolnick M, Davis RW: Construction of genetic linkage map in man using restriction fragment length polymorphism. Am J Hum Genet 1980, 32:314–331.Search in Google Scholar

32. Gutiérrez JP, Royo LJ, Álvarez I, Goyache F: MolKin v2.0: a computer program for genetic analysis of populations using molecular coancestry information. J Hered 2005, 96:718-721.10.1093/jhered/esi11816251515Search in Google Scholar

33. Excoffier L Laval G, Schneider S: Arlequin ver. 3.0: An integrated software package for population genetics data analysis. Evol Bioinform Online 2005, 1:47-50.10.1177/117693430500100003Search in Google Scholar

34. Nei M, Tajima F, Tateno Y: Accuracy of estimated phylogenetic trees from molecular data. J Mol Evol 1983, 19:153–70.10.1007/BF023007536571220Search in Google Scholar

35. Rambaut A: Figtree 1.4.4. [http://tree.bio.ed.ac.uk/software/figtree/].Search in Google Scholar

36. Hammer Ø, Harper DAT, Ryan PD: PAST: Paleontological Statistics Software Package for Education and Data Analysis. Palaeontol Electron 2001, 4(1):9.Search in Google Scholar

37. Cartwright A, Whitworth AP: The statistical analysis of star clusters. Mon Not R Astron Soc 2004, 348:589-597.10.1111/j.1365-2966.2004.07360.xSearch in Google Scholar

38. Cartwright A, Moss J, Cartwright J: New statistical methods for investigating submarine pockmarks. Comput and Geosci 2011, 37:1595-1601.10.1016/j.cageo.2011.02.013Search in Google Scholar

39. Pritchard JK, Stephens M, Donnelly P: Inference of population structure using multilocus genotype data. Genetics 2000, 155:945–959.10.1093/genetics/155.2.945146109610835412Search in Google Scholar

40. Evanno G, Regnaut S, Goudet J: Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol 2005, 14:2611–20.10.1111/j.1365-294X.2005.02553.x15969739Search in Google Scholar

41. Wang J: An estimator for pairwise relatedness using molecular markers. Genetics 2002, 160: 1203-1215.10.1093/genetics/160.3.1203146200311901134Search in Google Scholar

42. Ballou JD, Lacy RC: Identifying genetic important individuals for management of genetic diversity in pedigreed populations. In: Analytical methods and strategies in small population conservation. New York, United States of America: Columbia University Press; 1995, 76–111.Search in Google Scholar

43. Blouin MS, Parsons M, Lacaille V, Lotz S: Use of microsatellites to classify individuals by relatedness. Mol Ecol 1996, 5:393–401.10.1111/j.1365-294X.1996.tb00329.x8688959Search in Google Scholar

44. Jones KL, Glenn TC, Lacy RC, Pierce JR, Unruh N, Mirande CM, Chavez-Ramirez, F: Refining the whooping crane studbook by incorporating microsatellite DNA and leg-banding analyses. Conserv Biol 2002, 16(3):789-799.10.1046/j.1523-1739.2002.00001.xSearch in Google Scholar

45. Wang J: COANCESTRY: a program for simulating, estimating and analysing relatedness and inbreeding coefficients. Mol Ecol Resour 2011, 11:141-5.10.1111/j.1755-0998.2010.02885.x21429111Search in Google Scholar

46. Vilà C, Wayne RK: Hybridization between wolves and dogs. Conserv Biol 1999, 13:195–198.10.1046/j.1523-1739.1999.97425.xSearch in Google Scholar

47. Randi E, Lucchini V: Detecting rare introgression of domestic dog genes into wild wolf (Canis lupus) populations by Bayesian admixture analyses of microsatellite variation. Conserv Genet 2002, 3(1):29-43.Search in Google Scholar

48. Verardi A, Lucchini V, Randi E: Detecting introgressive hybridization between free-ranging domestic dogs and wild wolves (Canis lupus) by admixture linkage disequilibrium analysis. Mol Ecol 2006, 15(10):2845-2855.10.1111/j.1365-294X.2006.02995.x16911205Search in Google Scholar

49. Pilot M, Dąbrowski MJ, Hayrapetyan V, Yavruyan EG, Kopaliani N, Tsingarska E, Bujalska B, Kamiński S, Bogdanowicz, W: Genetic variability of the grey wolf Canis lupus in the Caucasus in comparison with Europe and the Middle East: distinct or intermediary population? PloS one 2014, 9(4):e93828.10.1371/journal.pone.0093828397971624714198Search in Google Scholar

50. Torres RT, Ferreira E, Rocha RG, Fonseca C: Hybridization between wolf and domestic dog: First evidence from an endangered population in central Portugal. Mamm Biol 2017, 86:70-74.10.1016/j.mambio.2017.05.001Search in Google Scholar

51. 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 ZL, Zhang YP, Bustamante CD, Ostrander EA, Novembre J, Wayne RK: Genome-wide SNP and haplotype analyses reveal a rich history underlying dog domestication. Nature 2010, 464:898–902.10.1038/nature08837349408920237475Search in Google Scholar

52. Kopaliani N, Shakarashvili M, Gurielidze Z, Qurkhuli T, Tarkhnishvili D: Gene flow between wolf and shepherd dog populations in Georgia (Caucasus). J Hered 2014, 105(3):345-353.10.1093/jhered/esu01424622972Search in Google Scholar

53. Miller-Butterworth C, Vacco K, Kaemmerer K, Gaspard J: Detailed characterization of repeat motifs of nine canid microsatellite loci in African painted dogs (Lycaon pictus). Mammal Res 2019, 64(4):601-605.10.1007/s13364-019-00442-5Search in Google Scholar

54. Pádár Z, Egyed B, Kontadakis K, Füredi S, Woller J, Zöldág L, Fekete S: Canine STR analyses in forensic practice. Int J Legal Med 2002, 116(5):286-288.10.1007/s00414-002-0302-212376839Search in Google Scholar