ПОЛНОГЕНОМНЫЙ ПОИСК АССОЦИАЦИЙ С ПРОДУКТИВНЫМИ КАЧЕСТВАМИ У ОТЕЧЕСТВЕННЫХ ПОРОД ЛОШАДЕЙ

Индира Бейшова; Диляра Гриценко; Малика Шамекова; Александр Пожарский; Татьяна Ульянова; Александр Ковальчук

doi:10.37884/4-2023/02

Abstract

The present work presents the results of a genome-wide association study of single nucleotide polymorphisms (SNP) with productive traits in traditional horse breeds, obtained on the basis of data from SNP genotyping of animals, carried out with the reagent set Equine 80k HTS («Illumina Inc», USA). Horses of the following breeds and types were studied Kazakh types Zhabe (n = 631), Adai (n = 303) and Naiman (n = 158), Mugalzhar (n = 584), Kushum (n = 226) and Kostanay (n = 116) breeds. Information on phenotypic data of the horses was collected before sampling and the following parameters were measured: the height at the withers, oblique body length, chest circumference, cannon bone circumference, and body weight. The total number of SNPs selected by quality control was 60,987. The genome-wide association study was performed using a linear regression test with the adaptive Monte-Carlo permutation method of p-value correction for multiple comparisons in PLINK1.9 software. The analysis revealed 60 polymorphisms associated with genes involved in the regulation of connective tissue and bone system, nervous system, immune system regulation, and other processes. This work confirmed the relevance of using such an approach in genome-wide association studies to detect single SNPs associated with individual traits.

genome-wide association studies horses Zhabe type Adai type Naiman type Mugalzhar breed Kushum breed Kostanay breed SNP

01 Introduction

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02 References

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2. Finno C.J. Applied equine genetics [Text] / C.J. Finno, D.L. Bannasch // Equine Veterinary Journal. - 2014. – V. 46. – P. 538-544.
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7. Бейшова И.С. Изучение генетического разнообразия отечественных пород лошадей с использованием полногеномного анализа SNP [Текст] / И.С. Бейшова, Д.А. Гриценко, М.Х. Шамекова, А.С. Пожарский, Т.В. Ульянова, А.М. Ковальчук // Izdenister Natigeler. – 2023. - № 3 (99). - С. 48-58.
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11. Raudsepp T. Ten years of the horse reference genome: insights into equine biology, domestication and population dynamics in the post-genome era [Text] / T. Raudsepp, C.J. Finno, R.R. Bellone, J.L. Petersen // Animal Genetics. - 2019. – V. 50. – P. 569-597.

Citation Links

[1]2023. A GENOME-WIDE ASSOCIATION STUDY OF PRODUCTIVE TRAITS IN TRADITIONAL HORSE BREEDS. Izdenister natigeler. 4 (100) (Dec. 2023), 11–19. DOI:https://doi.org/10.37884/4-2023/02.

(1)A GENOME-WIDE ASSOCIATION STUDY OF PRODUCTIVE TRAITS IN TRADITIONAL HORSE BREEDS. Izdenister natigeler 2023, No. 4 (100), 11-19. https://doi.org/10.37884/4-2023/02.

A GENOME-WIDE ASSOCIATION STUDY OF PRODUCTIVE TRAITS IN TRADITIONAL HORSE BREEDS. (2023). Izdenister Natigeler, 4 (100), 11-19. https://doi.org/10.37884/4-2023/02

A GENOME-WIDE ASSOCIATION STUDY OF PRODUCTIVE TRAITS IN TRADITIONAL HORSE BREEDS. Izdenister natigeler, [S. l.], n. 4 (100), p. 11–19, 2023. DOI: 10.37884/4-2023/02. Disponível em: https://natsus.kaznaru.edu.kz/index.php/research/article/view/427. Acesso em: 15 sep. 2026.

“A GENOME-WIDE ASSOCIATION STUDY OF PRODUCTIVE TRAITS IN TRADITIONAL HORSE BREEDS”. 2023. Izdenister Natigeler, no. 4 (100) (December): 11-19. https://doi.org/10.37884/4-2023/02.

“A GENOME-WIDE ASSOCIATION STUDY OF PRODUCTIVE TRAITS IN TRADITIONAL HORSE BREEDS” (2023) Izdenister natigeler, (4 (100), pp. 11–19. doi:10.37884/4-2023/02.

[1]“A GENOME-WIDE ASSOCIATION STUDY OF PRODUCTIVE TRAITS IN TRADITIONAL HORSE BREEDS”, Izdenister natigeler, no. 4 (100), pp. 11–19, Dec. 2023, doi: 10.37884/4-2023/02.

“A GENOME-WIDE ASSOCIATION STUDY OF PRODUCTIVE TRAITS IN TRADITIONAL HORSE BREEDS”. Izdenister Natigeler, no. 4 (100), Dec. 2023, pp. 11-19, https://doi.org/10.37884/4-2023/02.

“A GENOME-WIDE ASSOCIATION STUDY OF PRODUCTIVE TRAITS IN TRADITIONAL HORSE BREEDS”. Izdenister natigeler, no. 4 (100) (December 6, 2023): 11–19. Accessed September 15, 2026. https://natsus.kaznaru.edu.kz/index.php/research/article/view/427.

1.A GENOME-WIDE ASSOCIATION STUDY OF PRODUCTIVE TRAITS IN TRADITIONAL HORSE BREEDS. Izdenister natigeler [Internet]. 2023 Dec. 6 [cited 2026 Sep. 15];(4 (100):11-9. Available from: https://natsus.kaznaru.edu.kz/index.php/research/article/view/427

1.A GENOME-WIDE ASSOCIATION STUDY OF PRODUCTIVE TRAITS IN TRADITIONAL HORSE BREEDS. Izdenister natigeler. 2023;(4 (100):11-19. doi:10.37884/4-2023/02

[1] 1. Wade C.M. Genome Sequence, Comparative Analysis, and Population Genetics of the Domestic Horse [Text] / C.M. Wade, E. Giulotto, S. Sigurdsson, et al. // Science. – 2009. – V. 326. – P. 865-867.

[2] 2. Finno C.J. Applied equine genetics [Text] / C.J. Finno, D.L. Bannasch // Equine Veterinary Journal. - 2014. – V. 46. – P. 538-544.

[3] 3. Hill E.W. A genome-wide SNP-association study confirms a sequence variant (g.66493737C>T) in the equine myostatin (MSTN) gene as the most powerful predictor of optimum racing distance for Thoroughbred racehorses [Text] / E.W. Hill, B.A. McGivney, J. Gu, et al. // BMC Genomics. – 2010. – V. 11. – P. 552-1-552-10.

[4] 4. Rieder S. Molecular tests for coat colours in horses [Text] / S. Rieder // J Anim Breed Genet. – 2009. – V. 126. – P. 415-424.

[5] 5. Brosnahan M.M. Equine clinical genomics: A clinician's primer [Text] / M.M. Brosnahan, S.A. Brooks, D.F. Antczak // Equine Vet. – 2010. – V. 42. – P. 658-670.

[6] 6. Chang C.C. Second-generation PLINK: rising to the challenge of larger and richer datasets [Text] / C.C. Chang, C.C. Chow, L.C. Tellier, et al. // GigaScience. - 2015. – V. 4. – P. 7-1-7-16.

[7] 7. Бейшова И.С. Изучение генетического разнообразия отечественных пород лошадей с использованием полногеномного анализа SNP [Текст] / И.С. Бейшова, Д.А. Гриценко, М.Х. Шамекова, А.С. Пожарский, Т.В. Ульянова, А.М. Ковальчук // Izdenister Natigeler. – 2023. - № 3 (99). - С. 48-58.

[8] 8. McLaren W. The Ensembl Variant Effect Predictor [Text] / W. McLaren, L. Gil, S.E. Hunt, et al. // Genome Biology. – 2016. – V. 17. – P. 122-1-122-14.

[9] 9. Sherman B.T. DAVID: a web server for functional enrichment analysis and functional annotation of gene lists (2021 update) [Text] / B.T. Sherman, M. Hao, J. Qiu, et al. // Nucleic Acids Research. - 2022. – V. 50. – P. 216-221.

[10] 10. Bailey E. Genetics of Thoroughbred Racehorse Performance [Text] / E. Bailey, J.L. Petersen, T.S. Kalbfleisch // Annual Review of Animal Biosciences. - 2022. – V. 10. – P. 131-150.

[11] 11. Raudsepp T. Ten years of the horse reference genome: insights into equine biology, domestication and population dynamics in the post-genome era [Text] / T. Raudsepp, C.J. Finno, R.R. Bellone, J.L. Petersen // Animal Genetics. - 2019. – V. 50. – P. 569-597.