نوع مقاله : مقاله پژوهشی
نویسندگان
1 استادیار گروه علوم دامی دانشکده کشاورزی و منابع طبیعی دانشگاه اراک
2 دانش آموخته دکتری گروه علوم دامی، دانشکده کشاورزی، دانشگاه تبریز، تبریز، ایران
3 . استادیار گروه علوم دامی، دانشکده کشاورزی و منابع طبیعی، دانشگاه اراک، اراک، ایران
چکیده
هدف از این پژوهش، بررسی صفت تعداد نتاج در هر زایش میش بهعنوان یک صفت تولیدمثلی مهم بود. به این منظور از رکوردهای فنوتیپی هفت نژاد گوسفند وادی، هوی، ایسلندی، فینشیپ و رومانوف با باروری بالا و نژادهای تکسل و راهمنی با باروری پایین، برای مطالعه پویش ژنومی بر پایه آنالیز غنیسازی به‌منظور شناسایی مکانیسمهای زیستی استفاده شد. ارزیابی پویش کل ژنومی در بسته GenABEL برنامه R انجام شد. آنالیز غنیسازی مجموعه ژنی با بسته نرم‌افزاری goseq برنامه R با هدف شناسایی طبقات عملکردی و مسیرهای زیستی ژنهای نزدیک در مناطق انتخابی کاندیدا انجام شد. در این پژوهش ژنهای BMP5، DHCR24، BMPR1B، ESR1، ESR2 و PLCB1 در نژادهای وادی و رومانوف، ژنهای SMAD1، SMAD2، INSR و PTGS2 در نژادهای فینشیپ و هوی، ژنهای BMP7، NCOA1 و ERBB4 در گوسفند ایسلند، ژنهای BMP4، MSRB3 و SPP1 در نژاد تکسل، و ژنهای BMP7، EGFR و KCNMA1 در نژاد راهمنی با تعداد نتاج متولدشده مرتبط بودند. در تحلیل غنیسازی مجموعههای ژنی، تعداد 30 مسیر با صفت تعداد نتاج در هر زایش مرتبط بودند. از بین مسیرهای زیستی شناسایی‌شده، مسیرهای TGF-β signaling pathway،Oxytocin signaling pathway ، Estrogen signaling pathway، Prolactin signaling pathway وInsulin signaling pathway نقش مهمی در نرخ تخمکریزی و چند قلوزایی داشتند. با توجه به تأیید مناطق قبلی پویش ژنومی و شناسایی مناطق ژنومی جدید، استفاده از یافتههای این پژوهش میتواند در انتخاب ژنتیکی گوسفند از طریق تعداد نتاج بیش‌تر در هر زایش مفید باشد.
کلیدواژه‌ها
عنوان مقاله [English]
Gene set enrichment analysis using genome-wide association study to identify genes and pathways associated with litter size in various sheep breeds
نویسندگان [English]
- amir hossein khaltabadi farahani 1
- hossein mohammadi 2
- hossein moradi 3
1 . Assistant Professor, Department of Animal Sciences, Faculty of Agriculture and Natural Resources, Arak University, Arak, Iran
2 Ph.D Graduated, Department of Animal Science, Faculty of Agricultural Sciences, University of Tabriz, Tabriz, Iran
3 Assistant Professor, Department of Animal Sciences, Faculty of Agriculture and Natural Resources, Arak University, Arak, Iran
چکیده [English]
The aim of this study was to identify the molecular pathways related to litter size in sheep using gene set enrichment analysis. For this purpose, information of high prolificacy sheep breeds including Wadi, Hu, Icelandic, Finnsheep, and Romanov and low prolificacy including Texel and Rahmani were used for genome wide association studies and gene set enrichment analysis. Genome-wide association study was conducted using GenABEL package of R program. Gene set enrichment analysis was performed with the goseq R package to identify the biological pathways associated with candidate genes. We identified different sets of candidate genes related to litter size: BMP5, DHCR24, BMPR1B, ESR1, ESR2 and
PLCB1 in Wadi and Romanov; SMAD1, SMAD2, INSR and PTGS2 in Finnsheep and Hu; BMP7, NCOA1 and ERBB4 in Icelandic; BMP4, MSRB and SPP1 in Texel; BMP7, EGFR and KCNMA1 in Rahmani. According to pathway analysis, 30 pathways were associated with the litter size trait. Among biological pathways, the TGF-β signaling, Oxytocin signaling, Estrogen signaling, Prolactin signaling, and Insulin signaling pathways have significant association with ovulation rate and litter size trait. Overall, this study supported previous results from GWAS for litter size, also revealed additional regions in the sheep genome associated with litter size in sheep. These findings could potentially be useful for selective breeding for more litter size in sheep.
کلیدواژه‌ها [English]
- Biological pathways
- Gene set enrichment analysis
- Genome scan
- Prolificacy
- Sheep
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