Genome wide analysis of stress responsive WRKY transcription factors in Arabidopsis thaliana

WRKY transcription factors are a class of DNA-binding proteins that bind with a specific sequence C/TTGACT/C known as W-Box found in promoters of genes which are regulated by these WRKYs. From previous studies, 43 different stress responsive WRKY transcription factors in Arabidopsis thaliana, identi...

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Main Authors:	Shaiq Sultan, Muhammad Amjid Ali, Rana Muhammad Atif, Farrukh Azeem, Habibullah Nadeem, M. Hussnain Siddique, Ertuğrul Filiz, Khadim Hussain, Amjad Abbas
Format:	Article
Language:	English
Published:	Turkish Science and Tecnology (TST) 2016-04-01
Series:	Turkish Journal of Agriculture: Food Science and Technology
Subjects:	WRKY, Arabidopsis thaliana, stress, W-Box, phylogenetic analysis, transcription factor
Online Access:	http://www.agrifoodscience.com/index.php/TURJAF/article/view/580

id	doaj-art-186969ec7855413289a2ff7b66112b27
recordtype	oai_dc
spelling	doaj-art-186969ec7855413289a2ff7b66112b272018-09-09T11:53:38ZengTurkish Science and Tecnology (TST)Turkish Journal of Agriculture: Food Science and Technology2148-127X2016-04-014427929010.24925/turjaf.v4i4.279-290.580301Genome wide analysis of stress responsive WRKY transcription factors in Arabidopsis thalianaShaiq Sultan0Muhammad Amjid Ali1Rana Muhammad Atif2Farrukh Azeem3Habibullah Nadeem4M. Hussnain Siddique5Ertuğrul Filiz6Khadim Hussain7Amjad Abbas8Department of Bioinformatics & Biotechnology, Government College University, 38000 FaisalabadDepartment of Plant Pathology, University of Agriculture, 38040 Faisalabad,Centre of Agricultural Biochemistry & Biotechnology, University of Agriculture, 38040 Faisalabad,Department of Bioinformatics & Biotechnology, Government College University, 38000 FaisalabadDepartment of Bioinformatics & Biotechnology, Government College University, 38000 FaisalabadDepartment of Bioinformatics & Biotechnology, Government College University, 38000 FaisalabadDepartment of Crop and Animal Production, Cilimli Vocational School, Duzce University, 81750 Cilimli/DuzceDepartment of Bioinformatics & Biotechnology, Government College University, 38000 FaisalabadDepartment of Plant Pathology, University of Agriculture, 38040 FaisalabadWRKY transcription factors are a class of DNA-binding proteins that bind with a specific sequence C/TTGACT/C known as W-Box found in promoters of genes which are regulated by these WRKYs. From previous studies, 43 different stress responsive WRKY transcription factors in Arabidopsis thaliana, identified and then categorized in three groups viz., abiotic, biotic and both of these stresses. A comprehensive genome wide analysis including chromosomal localization, gene structure analysis, multiple sequence alignment, phylogenetic analysis and promoter analysis of these WRKY genes was carried out in this study to determine the functional homology in Arabidopsis. This analysis led to the classification of these WRKY family members into 3 major groups and subgroups and showed evolutionary relationship among these groups on the base of their functional WRKY domain, chromosomal localization and intron/exon structure. The proposed groups of these stress responsive WRKY genes and annotation based on their position on chromosomes can also be explored to determine their functional homology in other plant species in relation to different stresses. The result of the present study provides indispensable genomic information for the stress responsive WRKY transcription factors in Arabidopsis and will pave the way to explain the precise role of various AtWRKYs in plant growth and development under stressed conditions.http://www.agrifoodscience.com/index.php/TURJAF/article/view/580WRKY, Arabidopsis thaliana, stress, W-Box, phylogenetic analysis, transcription factor
institution	Open Data Bank
collection	Open Access Journals
building	Directory of Open Access Journals
language	English
format	Article
author	Shaiq Sultan Muhammad Amjid Ali Rana Muhammad Atif Farrukh Azeem Habibullah Nadeem M. Hussnain Siddique Ertuğrul Filiz Khadim Hussain Amjad Abbas
spellingShingle	Shaiq Sultan Muhammad Amjid Ali Rana Muhammad Atif Farrukh Azeem Habibullah Nadeem M. Hussnain Siddique Ertuğrul Filiz Khadim Hussain Amjad Abbas Genome wide analysis of stress responsive WRKY transcription factors in Arabidopsis thaliana Turkish Journal of Agriculture: Food Science and Technology WRKY, Arabidopsis thaliana, stress, W-Box, phylogenetic analysis, transcription factor
author_facet	Shaiq Sultan Muhammad Amjid Ali Rana Muhammad Atif Farrukh Azeem Habibullah Nadeem M. Hussnain Siddique Ertuğrul Filiz Khadim Hussain Amjad Abbas
author_sort	Shaiq Sultan
title	Genome wide analysis of stress responsive WRKY transcription factors in Arabidopsis thaliana
title_short	Genome wide analysis of stress responsive WRKY transcription factors in Arabidopsis thaliana
title_full	Genome wide analysis of stress responsive WRKY transcription factors in Arabidopsis thaliana
title_fullStr	Genome wide analysis of stress responsive WRKY transcription factors in Arabidopsis thaliana
title_full_unstemmed	Genome wide analysis of stress responsive WRKY transcription factors in Arabidopsis thaliana
title_sort	genome wide analysis of stress responsive wrky transcription factors in arabidopsis thaliana
publisher	Turkish Science and Tecnology (TST)
series	Turkish Journal of Agriculture: Food Science and Technology
issn	2148-127X
publishDate	2016-04-01
description	WRKY transcription factors are a class of DNA-binding proteins that bind with a specific sequence C/TTGACT/C known as W-Box found in promoters of genes which are regulated by these WRKYs. From previous studies, 43 different stress responsive WRKY transcription factors in Arabidopsis thaliana, identified and then categorized in three groups viz., abiotic, biotic and both of these stresses. A comprehensive genome wide analysis including chromosomal localization, gene structure analysis, multiple sequence alignment, phylogenetic analysis and promoter analysis of these WRKY genes was carried out in this study to determine the functional homology in Arabidopsis. This analysis led to the classification of these WRKY family members into 3 major groups and subgroups and showed evolutionary relationship among these groups on the base of their functional WRKY domain, chromosomal localization and intron/exon structure. The proposed groups of these stress responsive WRKY genes and annotation based on their position on chromosomes can also be explored to determine their functional homology in other plant species in relation to different stresses. The result of the present study provides indispensable genomic information for the stress responsive WRKY transcription factors in Arabidopsis and will pave the way to explain the precise role of various AtWRKYs in plant growth and development under stressed conditions.
topic	WRKY, Arabidopsis thaliana, stress, W-Box, phylogenetic analysis, transcription factor
url	http://www.agrifoodscience.com/index.php/TURJAF/article/view/580
_version_	1612608980813611008

Genome wide analysis of stress responsive WRKY transcription factors in Arabidopsis thaliana

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