همایش ملی بیوانفورماتیک ایران

صفحه اصلی / 4th international edition and 13th Iranian Conference on Bioinformatics

Study population structure in Iranian Arab horse breed by principal component analysis (PCA) and discriminant analysis of principal components (DAPC) methods using genomic data

نویسندگان :

Behkam Teymori¹ Hossein Moradi sharbabak² Mohammad Moradi sharbabak³ Mohammad Bagher Zandi⁴ Alireza Fotuhi Siahpirani⁵

1- دانشگاه تهران 2- tehran uni 3- tehran uni 4- University of Zanjan 5- tehran uni

کلمات کلیدی :

POPULATION STRUCTURE،Iranian arab horse،pca،dapc،snp markers

چکیده :

The preservation and reproduction of native animal species in any country is of considerable value and importance. Iran has native horse breeds that have deep roots in Iranian culture and civilization, so their protection is very necessary. There are various lineages in Iranian Arab horse populations that are usually classified based on morphological and genetic characteristics. The most important lineages include Kohailan, Hamdani, Seglavy, Jolfan, Shuiman, Abyan, Khersan, Hedban or hadian, Malihe, Nasmani, and Vadne. The aim of this study was to use two methods, principal component analysis (PCA) and discriminant principal component analysis (DAPC), to investigate the population structure of Iranian Arabian horses using SNP markers. . For this purpose, 109 Iranian Arabian horses from the Hamdani(19), Kahilan (9), Abyan(13), Seglavy(12), Khersan (53) and Shuiman (3), lineages were sampled. These lineages were identified based on information from the Arabian Horse Pedigree Book of the Islamic Republic of Iran Equestrian Federation. The samples were genotyped using Illumina SNP 40k chips. Data quality control steps were performed using Plink 1.9 software and none of the samples were deleted, but at maf 0.03 we saw the deletion of 2347 SNPs. Then, Python software was used to analyze the data. The results showed that in both analysis methods, the Khersan and Shuiman lineages were completely separated from other lineages, and the Abyan and Kehilan lineages were clustered close to each other, and the Seglavy and Hamdani lineages were also clustered close to each other, and DAPC provided a better picture of the relationship between lineages, which was observed using a Box plot between lineages. Given the small number of samples from different lineages such as Shuiman and the unavailability of phenotypic information of the samples, It is expected that in the future, with this information in hand, more extensive research will be able to be conducted on the Iranian Arab horse breeds.