شناسایی، طبقه بندی و آنالیز بیان بیوانفورماتیکی خانواده ژنی عوامل نسخه برداری NAC در ژنوم Hordeum vulgare cv. Morex

نوع مقاله : علمی پژوهشی

نویسندگان

1 دانشیار گروه زراعت و اصلاح‌نباتات، دانشگاه محقق اردبیلی، اردبیل

2 استادیار گروه علوم باغبانی، دانشگاه محقق اردبیلی، اردبیل

3 دانش‌آموخته کارشناسی‌ارشد بیوتکنولوژی دانشگاه پیام نور، تهران

4 دانشیار گروه بیوتکنولوژی، دانشگاه پیام نور، تهران

5 دانش‌آموخته دکتری ژنتیک مولکولی دانشگاه محقق اردبیلی، اردبیل

چکیده

خانواده ژنی NAC یک خانواده بزرگ عوامل نسخه‌برداری اختصاصی گیاهی است که نقش‌های متنوعی در مراحل نمو گیاهی و پاسخ به تنش‌ها ایفا می‌کند. با تکمیل پروژه توالی‌یابی ژنوم Hordeum vulgare cv. Morex امکان مطالعات بیوانفورماتیکی خانواده ژنی NAC در جو فراهم گردید. در این پژوهش با استفاده از پایش ژنومی، در کل 73 ژن غیرتکراری رمزکننده NAC در توالی‌های ژنومی Hordeum vulgare cv. Morex شناسایی شد. یک درخت تبارشناسی مرکب با توالی‌های پروتئینی HvNAC و تعدادی از توالی‌های پروتئینی NAC شناخته‌شده برنج و آرابیدوپسیس ترسیم شد و آنها به 15 زیرگروه مشخص طبقه‌بندی شدند. مشخص شد که پراکنش ژن‌های HvNAC روی کروموزوم‌های جو غیریکنواخت است. بیشتر ژن‌های NAC به‌صورت انفرادی قرار گرفته‌اند و معدودی از آنها با دو یا سه ژن خوشه‌بندی شده‌اند. بیشتر عناصر cis ردیابی‌شده در نواحی بالادست و پایین‌دست ژن‌های HvNAC در پاسخ به نور، پاسخ به تنش‌های غیرزیستی و به مقدار نسبتاً اندک در پاسخ به تنش-های زیستی دخیل هستند. در آنالیز in silico بیان ژن، ژن‌های HvNAC در دامنه گسترده‌ای از بافت‌های مختلف بیان شدند و در مراحل نموی به-طور عمده بیان نشدند، همچنین، ژن‌های HvNAC در شرایط تنش غیرزیستی تا حدودی و به مقدار نسبتاً کمتر در تنش‌های زیستی بیان شدند. این اطلاعات بیوانفورماتیکی چارچوبی برای مطالعات ژنومی و عملکردی این خانواده ژنی در جو فراهم می‌کند.

کلیدواژه‌ها

موضوعات

عنوان مقاله [English]

Identification, classification and bioinformatics expression analysis of NAC transcription factor gene family in Hordeum vulgare cv. Morex genome

نویسندگان [English]

  • Sara Dezhsetan 1
  • Mahdi Behnamian 2
  • Sahar Fathi Ajirlou 3
  • Mohammad Ali Ebrahimi 4
  • Beniamin Yazdani 5
1 Associate Professor, Department of Agronomy & Plant Breeding, Faculty of Agriculture and Natural Resources, University of Mohaghegh Ardabili, Ardabil, Iran.
2 Assistant Professor, Department of Horticultural Sciences, Faculty of Agriculture and Natural Resources, University of Mohaghegh Ardabili, Ardabil, Iran.
3 Former M. Sc. student of Biotechnology, Department of Agriculture, Karaj Payam Noor University, Alborz, Iran
4 Associate Professor, Payame Noor University, Tehran, Iran.
5 Former Ph. D. student of Molecular Genetics, Department of Agronomy & Plant Breeding, Faculty of Agriculture and Natural Resources, University of Mohaghegh Ardabili, Ardabil, Iran.
چکیده [English]

NAC gene family is one large family of plant-specific transcription factor that plays various roles in plant developmental stages and stress responses. The possibility of bioinformatics studies on NAC gene family in barley was provided with completion of the genome sequencing of Hordeum vulgare cv. Morex project. In this research using genome scanning, 73 non-redundant NAC-encoding genes in total were identified from the genomic sequences of Hordeum vulgare cv. Morex. A composite phylogenetic tree was constructed with HvNAC protein sequences and a number of known rice and Arabidopsis NAC protein sequences and tree was classified into 15 distinct subgroups. It is revealed the uneven distribution of the HvNAC genes on barley chromosomes. Most members of NAC genes were not located in groups (singletons) and few members of this family were located in groups with two or three genes. Most detected cis elements in upstream and downstream of HvNAC genes were involved in response to light, response to abiotic stresses and relatively low in response to biotic stresses. In silico gene expression analysis revealed that HvNAC genes were expressed in a wide range of tissues and is not highly expressed in developmental stages. Also, the HvNAC genes partly is expressed in stress conditions, especially in abiotic stresses and relatively less expressed in biotic stresses. This bioinformatics information provide a framework for genomics and functional studies of this gene family in barley.

کلیدواژه‌ها [English]

  • Affymetrix barley1 gene chip
  • Bioinformatics expression analysis
  • genome scanning
  • Hordeum vulgare
  • Transcription factor

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