Animal Bioscience

Asian Australasian Association of Animal Production Societies (아세아태평양축산학회)
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Assessment of genetic diversity using microsatellite markers to compare donkeys (Equus asinus) with horses (Equus caballus)

  • Kim, Su Min (College of Veterinary Medicine, Kyungpook National University) ;
  • Yun, Sung Wook (College of Veterinary Medicine and Institute of Equine Medicine, Kyungpook National University) ;
  • Cho, Gil Jae (College of Veterinary Medicine, Kyungpook National University)
  • Received : 2020.12.21
  • Accepted : 2021.04.20
  • Published : 2021.09.01
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Abstract

Objective: The study aimed to evaluate the diversity of donkey populations by comparing with the diversity of Thoroughbred and Jeju Halla horses; identified breeding backgrounds can contribute to management and conservation of donkeys in South Korea. Methods: A total of 100 horse (50 Thoroughbreds and 50 Jeju Halla horses) and 79 donkeys samples were genotyped with 15 microsatellite markers (AHT4, AHT5, ASB2, ASB17, ASB23, CA425, HMS1, HMS2, HMS3, HMS6, HMS7, HTG4, HTG10, LEX3, and VHL20), to identify genetic diversity and relationships among horses and donkeys. Results: The observed number of alleles per locus ranged from 1 (ASB17, HMS1) to 14 (AHT5), with a mean value of 4.87, 8.00, and 5.87 in Thoroughbreds, Jeju Halla horses, and donkeys, respectively. Of the 15 markers, AHT4, AHT5, ASB23, CA425, HMS2, HMS3, HTG4, HTG10, and LEX3 loci had relatively high polymorphism information content (PIC) values (PIC>0.5) in these three populations. Mean levels of genetic variation were HE = 0.6721 and HO = 0.6600 in Thoroughbreds, HE = 0.7898 and HO = 0.7100 in Jeju Halla horses, and HE = 0.5635 and HO = 0.4861 in donkeys. Of the 15 loci in donkeys, three loci had negative inbreeding coefficients (FIS), with a moderate mean FIS (0.138). The FIS estimate for the HTG4 marker was highest (0.531) and HMS6 marker was lowest (-0.001). The total probability of exclusion value of 15 microsatellite loci was 0.9996 in donkeys. Conclusion: Genetic cluster analysis showed that the genetic relationship among 79 donkeys was generally consistent with pedigree records. Among the three breeds, donkeys and Thoroughbred horses formed clearly different groups, but the group of Jeju Halla horses overlapped with that of Thoroughbred horses, suggesting that the loci would be suitable for donkey parentage testing. Therefore, the results of this study are a valid tool for genetic study and conservation of donkeys.

Keywords

Acknowledgement

This research was supported by the National Research Foundation of Korea, funded by the Ministry of Education, Science and Technology (NRF-2020R1I1A3067905).

References

  1. Nowak RM, Paradiso JL. Walker's mammals of the world. 4th ed. Baltimore, MD, USA: The Johns Hopkins University Press; 1983.
  2. Beja-Pereira A, England PR, Ferrand N, et al. African origins of the domestic donkey. Science 2004;304:1781. http://doi.org/10.1126/science.1096008
  3. Polidori P, Vincenzetti S. Protein profile characterization of donkey milk. In: Hurley WL, editor. Milk protein. Rijeka, Croatia: InTech Publisher; 2012. pp. 215-32. http://doi.org/10.5772/48982
  4. Shin SK, Kim SM, Lioyd S, Cho GJ. Prevalence of hoof disorders in horses in South Korea. The Open Agric J 2020;14:25-9.
  5. Arranz JJ, Bayon Y, Primitivo FS. Comparison of protein markers and microsatellites in differentiation of cattle populations. Anim Genet 1996;27:415-9. https://doi.org/10.1111/j.1365-2052.1996.tb00508.x
  6. Bjornstad G, Nilsen NO, Roed KH. Genetic relationship between Mongolian and Norwegian horses. Anim Genet 2003;34:55-8. https://doi.org/10.1046/j.1365-2052.2003.00922.x
  7. Li K, Fan B, Zhao S, Peng Z, Chen Y, Moran C. Analysis of diversity and genetic relationships between four Chinese Indigenous pig breeds and one Australian commercial pig breed. Anim Genet 2000;31:322-5. https://doi.org/10.1046/j.1365-2052.2000.00649.x
  8. Ellegren H, Jihansson M, Sandberg K, Andersson L. Cloning of highly polymorphic microsatellites in the horse. Anim Genet 1992;23:133-42. https://doi.org/10.1111/j.1365-2052.1992.tb00032.x
  9. Kang BT, Kim KS, Min MS, et al. Microsatellite loci analysis for the genetic variability and the parentage test of five dog breeds in South Korea. Genes Genet System 2009;84:245-51. https://doi.org/10.1266/ggs.84.245
  10. Lipinski MJ, Amigues Y, Blasi M, et al. An international parentage and identification panel for the domestic cat (Felis catus). Anim Genet 2007;38:371-7. https://doi.org/10.1111/j.1365-2052.2007.01632.x
  11. Marklund S, Ellegren H, Eriksson S, et al. Parentage testing and linkage analysis in the horse using a set of highly polymorphic microsatellites. Anim Genet 1994;25:19-23. https://doi.org/10.1111/j.1365-2052.1994.tb00050.x
  12. Tozaki T, Kakoi H, Mashima S, et al. Population study and validation of paternity testing for Thoroughbred horses by 15 microsatellite loci. J Vet Med Sci 2001;63:1191-7. https://doi.org/10.1292/jvms.63.1191
  13. Li C, Wang Z, Liu B, et al. Evaluation of the genetic relationship among ten Chinese indigenous pig breeds with twenty-six microsatellite markers. Asian-Australas J Anim Sci 2004;17:441-4. https://doi.org/10.5713/ajas.2004.441
  14. Zhang JH, Xiong YZ, Deng CY. Correlations of genic heterozygosity and variances with heterosis in a pig population revealed by microsatellite DNA marker. Asian-Australas J Anim Sci 2005;18:620-5. https://doi.org/10.5713/ajas.2005.620
  15. Dimsoski P. Development of a 17-plex microsatellite polymerase chain reaction kit for genotyping horses. Croat Med J 2003;44:332-5.
  16. Kalinowski ST, Taper ML, Marshall TC. Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment. Mol Ecol 2007;16:1099-106. https://doi.org/10.1111/j.1365-294X.2007.03089.x
  17. Tozaki T, Takezaki N, Hasegawa T, et al. Microsatellite variation in Japanese and Asian horses and their phylogenetic relationship using a European horse outgroup. J Hered 2003;94:374-80. https://doi.org/10.1093/jhered/esg079
  18. Bowling AT, Eggleston-Scott ML, Byrns G, Clark RS, Dileanis D, Wictum E. Validation of microsatellite markers for routine horse parentage testing. Anim Genet 1997;28:247-52. https://doi.org/10.1111/j.1365-2052.1997.00123.x
  19. Cho GJ, Yang YJ, Kang HS, Cho BW. Genetic diversity and validation of microsatellite markers for Jeju native horse parentage testing. Korean J Genet 2002;24:359-65.
  20. Kim KS, Choi CB. Genetic structure of Korean native pig using microsatellite markers. Korean J Genet 2002;24:1-7.
  21. Cho GJ, Cho BW. Microsatellite DNA typing using 16 markers for parentage verification of the Korean native horse. Asian-Australas J Anim Sci 2004;17:750-4. https://doi.org/10.5713/ajas.2004.750
  22. Sun W, Chang H, Ren HZ, et al. Genetic differentiation between sheep and goats based on microsatellite DNA. Asian-Australas J Anim Sci 2004;17:583-7. https://doi.org/10.5713/ajas.2004.583
  23. Yoon DH, Kong HS, Oh JD, et al. Establishment of an individual identification system based on microsatellite polymorphisms in Korean cattle (Hanwoo). Asian-Australas J Anim Sci 2005;18:762-6. https://doi.org/10.5713/ajas.2005.762
  24. Cho GJ. Microsatellite polymorphism and genetic relationship in dog breeds in Korea. Asian-Australas J Anim Sci 2005;18:1071-4. https://doi.org/10.5713/ajas.2005.1071
  25. Rossel S, Marshall F, Peters J, Pilgram T. 2008. Domestication of the donkey: timing, processes, and indicators. Proc Natl Acad Sci USA 2009;105:3715-20. https://doi.org/10.1073/pnas.0709692105
  26. Van de Goor LHP, Panneman H, van Haeringen WA. A proposal for standardization in forensic equine DNA typing: allele nomenclature for 17 equine-specific STR loci. Anim Genet 2010;41:122-7. https://doi.org/10.1111/j.1365-2052.2009.01975.x
  27. Oberbauer AM, Belanger JM, Grossman DI, Regan KR, Famula TR. Genome-wide linkage scan for loci associated with epilepsy in Belgian shepherd dogs. BMC Genet 2010;11:35. https://doi.org/10.1186/1471-2156-11-35