نوع مقاله : مقاله پژوهشی
نویسندگان
1 دانشجوی دکتری، گروه علوم دامی، دانشکده کشاورزی، دانشگاه تربیت مدرس، تهران، ایران.
2 دانشیار، گروه علوم دامی، دانشکده کشاورزی، دانشگاه تربیت مدرس، تهران، ایران.
3 استادیار، گروه علوم دامی، دانشکده کشاورزی، دانشگاه تربیت مدرس، تهران، ایران.
4 استادیار، گروه علوم کامپیوتر، دانشکده ریاضی، آمار و علوم کامپیوتر، پردیس علوم، دانشگاه تهران، تهران، ایران.
چکیده
هدف از این مطالعه بررسی پروفایل بیان ژن در بافت تخمدان گوسفندان شال با استفاده از داده‌های توالی‌یابی RNA بود. برای این منظور، تخمدان‌های پنج رأس گوسفند شال بعد از هم‌زمان‌سازی فحلی جدا‌سازی و RNA آن‌ها با استفاده از فناوری Illumina Hiseq 4000 توالی‌یابی شد. به‌طور میانگین، داده‌های به‌دست آمده از توالی‌یابی شامل 26638311 جفت خوانش با نرخ نقشه‌یابی منحصر به فرد 81/08 بود. نتایج حاصل از آنالیز‌های بیوانفورماتیکی، بیان 21085 ژن را در بافت تخمدان گوسفندان شال نشان داد که از این تعداد 15087 ژن دارای میانگین بیان بالاتر از 10 بودند. تجزیه و تحلیل عملکردی ژن‌ها، معنی‌داری (p<0/05) بود 162 عبارت GO شامل 41 فرایند بیولوژیکی، 46 عملکرد مولکولی و 75 جز سلولی را نشان داد. همچنین آنالیز مسیرهای KEGG ، 149 مسیر معنی دار ( p <0/05) را شناسایی کرد که مهم ترین آن ها مسیر پیام رسانی استروژن، مسیر پیام رسانی TGF-beta و تقسیم میوز اووسیت بود. بررسی بیان ژن های عمده برای دوقلوزایی و تولیدمثل، بیان بالایی برای ژن های INHA, INHBA,BMPR1B را نشان داد و ژن INHA یک فاکتور پاراکرین مهم در فولیکول های تخمدان جز 10 ژن با بالاترین میانگین بود. همچنین ژن های FSHR, ESR1 و ESR2 بیان متوسط و ژن های GDF9, BMP15 و PRLR بیان پایینی در نمونه ها نشان دادند. در این مطالعه برای اولین بار ترنسکریپتوم بافت تخمدان میش های شال با استفاده از فناوری RNA-seq بطور جامع بررسی شد و این مطالعه می تواند پایه ژنتیکی مفیدی برای شناخت بهتر ژن ها و فرایندهای درگیر در تولیدمثل گوسفندان شال فراهم کند.
کلیدواژه‌ها
عنوان مقاله [English]
Analysis of ovarian tissue transcriptome profile in Shal ewes using RNA-Seq data
نویسندگان [English]
- Parvin Shariati Gazgazareh 1
- ALI AKBAR MASOUDI 2
- Rasoul Vaez Torshizi 2
- Alireza Ehsani 3
- Zaynab Mousavian 4
1 Ph.D. Student, Department of Animal Science, Faculty of Agriculture, Tarbiat Modares University, Tehran, Iran.
2 Associate Professor, department of Animal Science, Tarbiat Modares University
3 Assistant Professor, Department of Animal Science, Faculty of Agriculture, Tarbiat Modares University, Tehran, Iran.
4 Assistant Professor,Department of Computer Science, School of Mathematics, Statistics, and Computer Science, College of Science, University of Tehran, Tehran, Iran
چکیده [English]
The aim of this study was the investigation of gene expression profile in Shal sheep ovarian tissue using RNA sequencing data. For this purpose, the ovaries of five Shal sheep were isolated after estrous synchronization and their RNA was sequenced using Illumina Hiseq 4000 technology. On average, the data obtained from the sequencing consisted of 26638311 read pairs with 81.08 unique mapping rate. The results of bioinformatic analyzes revealed the expression of 21085 genes in Shal sheep ovarian tissue, of which 15078 genes had expression mean above 10. Gene ontology analysis revealed the significant enrichment of 162 GO terms including 41 biological processes, 46 molecular functions and 75 cellular components. KEGG pathway analysis also identified 149 significant pathways (P <0.05), most important of which were estrogen signaling pathway, TGF-beta signaling pathway and oocyte meiosis. Investigating the expression of major genes for twining and reproduction, showed a high expression for INHA, INHBA and BMPR1B, so that INHA, an important paracrine factor in ovarian follicles, was one of the 10 genes with the highest expression. Also, FSHR, ESR1 and ESR2 showed medium expression and GDF9, BMP15 and PRLR showed low expression in the samples. For the first time, in this study the ovarian tissue transcriptome of Shal ewes was comprehensively studied using RNA-Seq technology and this study can provide a useful genetic basis for a better understanding of the genes and processes involved in the Shal sheep reproduction.
کلیدواژه‌ها [English]
- Bioinformatics analysis
- Major genes
- Ovulation rate
- Reproduction
- Twining
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