Animal Bioscience

  • 제37권4호
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  • Pages.600-608
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  • 2024
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  • 2765-0189(pISSN)
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  • 2765-0235(eISSN)
아세아태평양축산학회 (Asian Australasian Association of Animal Production Societies)
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Single nucleotide polymorphisms for parentage testing of horse breeds in Korea

  • Sun-Young Lee (Racing Laboratory, Korea Racing Authority) ;
  • Su-Min Kim (Department of Horse Industry, Sung Woon University) ;
  • Baatartsogt Oyungerel (School of Animal Science and Biotechnology, Mongolian University of Life Sciences) ;
  • Gil-Jae Cho (College of Veterinary Medicine, Kyungpook National University)
  • 투고 : 2023.04.01
  • 심사 : 2023.09.05
  • 발행 : 2024.04.01
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초록

Objective: In this study, we aimed to evaluate the usability single nucleotide polymorphisms (SNPs) for parentage testing of horse breeds in Korea. Methods: The genotypes of 93 horse samples (38 Thoroughbred horses, 17 Jeju horses, 20 Quarter horses, and 18 American miniature horses) were determined using 15 microsatellite (Ms) markers (AHT4, AHT5, ASB2, ASB17, ASB23, CA425, HMS1, HMS2, HMS3, HMS6, HMS7, HTG4, HTG10, LEX3, and VHL20) and 101 SNP markers. Results: Paternity tests were performed using 15 Ms markers and 101 SNP markers in Thoroughbred horses and Quarter horses. AHT5, ASB2, ASB17, ASB23, CA425, HMS7, HTG10, and LEX3 did not follow Mendelian inheritance in Thoroughbred horses, whereas in Quarter horses, only AHT4, ASB2, and HMS2 showed Mendelian inheritance, consequently, paternity was not established. Meanwhile, 31 markers, including MNEc_2_2_2_98568918_BIEC2_502451, in Thoroughbred horses, and 30 markers, including MNEc_2_30_7430735_BIEC2_816793, in Quarter horses did not conform with Mendelian inheritance and therefore, could not be used for establishing parentage. Conclusion: The possibility of replacing Ms markers with SNP markers for paternity testing in horses was confirmed. However, further research using more samples is necessary.

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과제정보

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

참고문헌

  1. Park CS, Lee SY, Cho GJ. Evaluation of recent changes in genetic variability in Thoroughbred horses based on microsatellite markers parentage panel in Korea. Anim Biosci 2022;35:527-32. https://doi.org/10.5713/ab.21.0272
  2. Hirota KI, Kakoi H, Gawahara H, Hasegawa T, Tozaki T. Construction and validation of parentage testing for thoroughbred horses by 53 single nucleotide polymorphisms. J Vet Med Sci 2010;72:719-26. https://doi.org/10.1292/jvms.09-0486
  3. Nolte W, Alkhoder H, Wobbe M, et al. Replacement of microsatellite markers by imputed medium density SNP arrays for parentage control in German warmblood horses. J Appl Genet 2022;63:783-92. https://doi.org/10.1007/s13353-022-00725-9
  4. Meuwissen T, Hayes B, Goddard M. Genomic selection: a paradigm shift in animal breeding. Anim Front 2016; 6:6-14. https://doi.org/10.2527/af.2016-0002
  5. Lee YS, Lee WJ, Kim H. Estimating effective population size of thoroughbred horses using linkage disequilibrium and theta (4Nμ) value. Livest Sci 2014;168:32-7. https://doi.org/10.1016/j.livsci.2014.08.008
  6. Holl HM, Vanhnasy J, Everts RE, et al. Single nucleotide polymorphisms for DNA typing in the domestic horse. Anim Genet 2017;48:669-76. https://doi.org/10.1111/age.12608
  7. Vignal A, Milan D, SanCristobal M, Eggen A. A review on SNP and other types of molecular markers and their use in animal genetics. Genet Sel Evol 2002;34:275. https://doi.org/10.1186/1297-9686-34-3-275
  8. McClure MC, Sonstegard TS, Wiggans G, et al. Imputation of microsatellite alleles from dense SNP genotypes for parentage verification across multiple Bos taurus and Bos indicus breeds. Front Genet 2013;4:176. https://doi.org/10.3389/fgene.2013.00176
  9. Thermo Fisher Scientific. KingFisher Presto User Manual; 2016.
  10. Laurie CC, Doheny KF, Mirel DB, et al. Quality control and quality assurance in genotypic data for genome-wide association studies. Genet Epidemiol 2010;34:591-602. https://doi.org/10.1002/gepi.20516
  11. Thermo Fisher Scientific. AxiomTM Genotyping Solution Data Analysis User Guide. Santa Clara, CA, USA: Thermo Fisher Scientific Inc.; 2022.
  12. Pluzhnikov A, Below JE, Tikhomirov A, Konkashbaev A, Nicolae D, Cox NJ. Differential bias in genotype calls between plates due to the effect of a small number of lower DNA quality and/or contaminated samples. Genet Epidemiol 2008;32:676.
  13. Bowling AT, Eggleston-Stott ML, Byrns G, Clark RS, Dileanis S, 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
  14. McKay SD, Schnabel RD, Murdoch BM, et al. An assessment of population structure in eight breeds of cattle using a whole genome SNP panel. BMC Genet 2008;9:37. https://doi.org/10.1186/1471-2156-9-37
  15. Petkov PM, Ding Y, Cassell MA, et al. An efficient SNP system for mouse genome scanning and elucidating strain relationships. Genome Res 2004;14:1806-11. https://doi.org/10.1101/gr.2825804
  16. Salisbury BA, Pungliya M, Choi JY, Jiang R, Sun XJ, Stephens JC. SNP and haplotype variation in the human genome. Mutat Res 2003;526:53-61. https://doi.org/10.1016/s0027-5107(03)00014-9
  17. Hui L, DelMonte T, Ranade K. Genotyping using the TaqMan assay. Curr Protoc Hum Genet 2008;56:2.10.1-8. https://doi.org/10.1002/0471142905.hg0210s56
  18. Lee HY, Park MJ, Yoo JE, Chung U, Han GR, Shin KJ. Selection of twenty-four highly informative SNP markers for human identification and paternity analysis in Koreans. Forensic Sci Int 2005;148:107-12. https://doi.org/10.1016/j.forsciint.2004.04.073
  19. Lessig R, Zoledziewska M, Fahr K, et al. Y-SNP genotyping-a new approach in forensic analysis. Forensic Sci Int 2005;154:128-36. https://doi.org/10.1016/j.forsciint.2004.09.129
  20. Rohrer GA, Freking BA, Nonneman D. Single nucleotide polymorphisms for pig identification and parentage exclusion. Anim Genet 2007;38:253-8. https://doi.org/10.1111/j.1365-2052.2007.01593.x
  21. Werner FAO, Durstewitz G, Habermann FA, et al. Detection and characterization of SNPs useful for identity control and parentage testing in major European dairy breeds. Anim Genet 2004;35:44-9. https://doi.org/10.1046/j.1365-2052.2003.01071.x
  22. Haase B, Brooks SA, Tozaki T, et al. Seven novel KIT mutations in horses with white coat colour phenotypes. Anim Genet 2009;40:623-9. https://doi.org/10.1111/j.1365-2052.2009.01893.x