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بررسی ساختار جمعیتی و الگوی عدم تعادل پیوستگی اسب‌های بومی ایران با استفاده از نشانگرهای SNP | ||
| علوم دامی ایران | ||
| دوره 55، شماره 4، دی 1403، صفحه 769-786 اصل مقاله (1.11 M) | ||
| نوع مقاله: مقاله پژوهشی | ||
| شناسه دیجیتال (DOI): 10.22059/ijas.2024.367367.653968 | ||
| نویسندگان | ||
| محمد عبدلی1؛ محمد باقر زندی باغچه مریم* 1؛ محمد طاهر هرکی نژاد2؛ معین تاند2 | ||
| 1گروه علوم دامی، دانشکده کشاورزی، دانشگاه زنجان، زنجان، ایران. | ||
| 2گروه علوم دامی، دانشکده کشاورزی، دانشگاه زنجان، زنجان. ایران. | ||
| چکیده | ||
| هدف این پژوهش، بررسی ساختار و فواصل ژنتیکی، هم‌خونی و الگوی عدم تعادل پیوستگی (LD) و درک روابط بین نژادهای اسب بومی ایران بود. در مجموع از 167 راس اسب که شامل 24 راس از نژاد عرب (اصیل)، 24 راس نژاد کاسپین، 15 راس نژاد دره‌شوری، 66 راس نژاد کرد و 40 راس ترکمن بودند، استفاده شد. نمونه‌ها با استفاده از تراشه (Illumina 70k SNP equine bead chip) ژنوتایپ شدند. در پالایش داده‌ها، جایگاه‌هایی با MAF کمتر از 2 درصد، Mind کمتر از 5 درصد، HWE کمتر از و ژنوتاپت‌های کمتر از 01/0 حذف شدند و 45270 جایگاه SNP در 159 راس اسب برای آنالیزهای بررسی ساختار ژنتیکی اسب‌های بومی ایران به کار گرفته شد. تجزیه ساختار ژنتیکی نشان داد که در K=5 نژادهای کاسپین و کرد در یک خوشه مشترک قرار گرفتند و نژادهای ترکمن، دره‌شوری و عرب (اصیل) نیز خوشه‌های متمایزی تشکیل دادند. فاز LD در بین تمام نژادها در فاصله زیر bp400 کاهش معناداری داشت. نژاد کاسپین و دره‌شوری به ترتیب کم‌ترین و بیش‌ترین LD و بیش‌ترین و کم‌ترین اندازه موثر جمعیت را تجربه کردند. کم‌ترین و بیش‌ترین ضریب هم‌خونی براساس رشته‌های هموزیگوت ژنومی (ROH) نیز به ترتیب در نژادهای عرب اصیل و کاسپین دیده شد. نتایج نشان داد نژادهای بومی اسب ایران به خوبی با نشانگرهای (SNP) شناسایی شدند که این موضوع می‌تواند در تشکیل پایه‌های ژنومی نژادها (Data Base) و با صحت بالا مورد استفاده قرار گیرد. | ||
| کلیدواژه‌ها | ||
| اسب‌های بومی ایران؛ تنوع ژنتیکی؛ عدم تعادل پیوستگی؛ رشته‌های هموزیگوسیتی؛ نشانگرهای چندشکلی تک نوکلئوتیدی | ||
| عنوان مقاله [English] | ||
| Study of population structure and linkage disequilibrium pattern of Iranian native horse breeds by SNP markers | ||
| نویسندگان [English] | ||
| Mohammad Abdoli1؛ Mohammad Bagher Zandi baghcheh maryam1؛ Taher Harkinezhad2؛ Moein Taned2 | ||
| 1Department of Animal Science, Faculty of Agriculture, University of Zanjan, Zanjan, Iran. | ||
| 2Department of Animal Science, Faculty of Agriculture, University of Zanjan, Zanjan, Iran. | ||
| چکیده [English] | ||
| The aim of this study was to investigate the structure and genetic distances, inbreeding, and linkage disequilibrium (LD) in Iranian native horse breeds. Samples on 167 horses including Arabian Asil (24), Caspian (22), Dareshouri (15), Kurdish (66), and Turkmen (40) breeds were used. The samples were genotyped using Illumina 70k SNP equine bead chip. Data quality control was applied and loci with MAF < 2%, Mind < 5%, HWE (<10-6), and genotype call rate < 1% were removed. Finally, 159 horses with 45,270 SNP loci were reminded for the genetic structure analyse. Clustering analyse showed that in K=5 Caspian and Kurdish breeds were placed in a common cluster, and Turkmen, Dareshouri, and Arabian Asil breeds were also located in distinct clusters. The LD decay among all breeds showed a significant decrease below 400 bp. Caspian and Dareshouri breeds experienced the lowest and highest LD and the highest and lowest effective population size, respectively. The inbreeding value based on the runs of homozygosity (ROH) were highest and lowest for Arabian Asil and Caspian breeds, respectively. The results showed that the Iranian native horse breeds were well identified by SNP markers, which can be used for stud base foundations of breeds with more accuracy. | ||
| کلیدواژه‌ها [English] | ||
| Iranian native horses, Genetic diversity, linkage disequilibrium, Runs of homozygosity, single nucleotide polymorphism markers | ||
| مراجع | ||
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