بررسی بیان ژن و شبکه های ژنی مرتبط با آپوپتوزیس در مرغان حساس و مقاوم به آسیت والدین جوجه گوشتی آرین با استفاده از RNA-seq

نوع مقاله : مقاله پژوهشی

نویسندگان

1 دانشجوی دوره دکتری تخصصی، گروه علوم دامی، دانشکده کشاورزی، دانشگاه فردوسی مشهد

2 استاد، گروه علوم دامی، دانشکده کشاورزی، دانشگاه فردوسی مشهد

3 استادیار، گروه علوم دامی، دانشکده کشاورزی، دانشگاه فردوسی مشهد

4 استادیار، گروه علوم دامی، دانشکده کشاورزی، موسسه آموزش و تحقیقات تربت جام

5 دانشیار، گروه بیومدیکال مولکولی، دانشگاه آدلاید استرالیا

چکیده

برنامه‌های به­گزینی روی لاین آرین، بدون توجه به توسعه اندام‌های حیاتی بدن، از جمله قلب سبب شده که این لاین به یکی از لاین‌های بسیار حساس نسبت به سندروم آسیت شناخته شود. از این­رو، این مطالعه با هدف شناسایی ژن‌ها و شبکه‌های ژنی درگیر با آپوپتوزیس قلبی در سلول‌های بافت قلب مرغان حساس و مقاوم به آسیت لاین آرین انجام شد. بدین منظور، دو نمونه حساس و دو نمونه مقاوم استخراج RNA و اطلاعات ترانسکریپتومی آنها با استفاده از توالی‌یابی نسل جدید RNA-Seq بدست آمد. تعیین کیفیت داده و حذف آلودگی آن با استفاده از نرم­افزارهای FastQC و Trimmomatic صورت گرفت. همچنین تفریق بیان ژن با استفاده از نرم‌افزارهای Cuffmerge، Cufflink و Cuffdiff امکان­پذیر شد. 20034 ژن در مجموع نمونه‌ها مشاهده شدند که بعد از جداسازی ژن­های با میزان بیان معنی­دار نمونه­های مقاوم نسبت به حساس، در مجموع 291 ژن با 66 مسیر زیستی مرتبط دانسته شدند، که در این میان، 53 ژن در مسیر زیستی آپوپتوزیس ارتباط معنی­دار داشتند. بررسی فرآیندهای زیستی هستی­شناسی ژن‌های معنی­دار در نمونه­های مقاوم به آسیت برای مسیر زیستی آپوپتوزیس نشان دادند که مسیرهای تنظیم فرآیند سلولی و تنظیم منفی آپوپتوزیس به طور معنی­داری تحت تاثیر آسیت قرار دارند (01/0>FDR). شبکه ژنی ترسیم شده نشان داد که ژن­های MEF2A، FGF10، CDK1 و MAD2L1 دارای بیشترین ارتباط ژنی در شبکه ژنی هستند. بنابراین اصلاح نژاد مبتنی بر این ژن­ها و طراحی دارو ممکن است در کنترل آپوپتوزیس ناشی از سندروم آسیت موثر باشد.

کلیدواژه‌ها

موضوعات

عنوان مقاله [English]

Investigation of gene expression and gene networks related to apoptosis in sensitive and resistant Aryan broiler breeders with RNA-Seq

نویسندگان [English]

  • S. Sahraei 1
  • M. R. Nassiri 2
  • A. Javadmanesh 3
  • R. Tohidi 4
  • E. Ebrahimie 5
1 Ph.D Student, Department of Animal Science, Faculty of Agriculture, Ferdowsi University of Mashhad, Mashhad, Iran
2 Professor, Department of Animal Science, Faculty of Agriculture, Ferdowsi University of Mashhad, Mashhad, Iran
3 Assistant Professor, Department of Animal Science, Faculty of Agriculture, Ferdowsi University of Mashhad, Mashhad, Iran
4 Assistant Professor, Department of Animal Science, Faculty of Agriculture, Torbat-e-Jam University, Torbat-e-Jam, Iran
5 Associate Professor, School of Molecular and Biomedical Science, The University of Adelaide, Australia
چکیده [English]

The designing of animal breeding program on Aryan broiler chicks without development of vital organs such as the heart, has made the chicken most susceptible for ascites syndrome. The cell apoptosis is common in ascites syndrome. Therefore, this study was done with the aim of identification of genes and genetic networks that involved in cardiac cell apoptosis among normal Aryan chickens and Aryan chickens resistant to ascites. For this purpose, two ascites and two normal samples of Aryan chicken were RNA extracted and transcriptome data were produced by the Next Generation Sequencing. The data quality and elimination of pollution were performed with FastQC and Trimmomatic softwares. In addition, the gene expression analyses were investigated using Cuffmerge, Cufflink and Cuffdiff. The results showed that there were 20034 genes in samples that 291 genes were associated with 66 biological pathways. Among this, 53 genes were associated with apoptosis pathways. Investigation of the biological process of gene ontology showed that regulation of cellular process and negative regulation of apoptosis pathways were significantly affected by chickens resistant to ascites syndrome (FDR <0.01). The gene network was extracted by 48 nodes in two clusters. The results of genes’ networking showed that MEF2A, FGF10, CDK1 and MAD2L1 genes had maximum gene association. Therefore, the ascites syndrome in Aryan chickens can be controlled focusing on these genes for breeding programs and drug designing.

کلیدواژه‌ها [English]

  • Apoptosis
  • Gene Expression
  • Ascites Syndrome
  • Aryan chicken
  • RNA-Seq

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تحقیقات تولیدات دامی
دوره 8، شماره 1
خرداد 1398
صفحه 53-66

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