Genome-wide identification and expression analysis of the WRKY gene family in cassava
The WRKY family, a large family of transcription factors (TFs) found in higher plants, plays central roles in many aspects of physiological processes and adaption to environment. However, little information is available regarding the WRKY family in cassava (Manihot esculenta). In the present study,...
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doaj-32163c29edb6492281372331dbc42bde2020-11-25T00:04:57ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2016-02-01710.3389/fpls.2016.00025170716Genome-wide identification and expression analysis of the WRKY gene family in cassavaYunxie eWei0Haitao eShi1Zhiqiang eXia2Weiwei eTie3Zehong eDing4Yan eYan5Wenquan eWang6Wei eHu7Kaimian eLi8Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresources, College of Agriculture, Hainan UniversityHainan Key Laboratory for Sustainable Utilization of Tropical Bioresources, College of Agriculture, Hainan UniversityInstitute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesInstitute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesInstitute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesInstitute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesInstitute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesInstitute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesInstitute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesThe WRKY family, a large family of transcription factors (TFs) found in higher plants, plays central roles in many aspects of physiological processes and adaption to environment. However, little information is available regarding the WRKY family in cassava (Manihot esculenta). In the present study, 85 WRKY genes were identified from the cassava genome and classified into three groups according to conserved WRKY domains and zinc-finger structure. Conserved motif analysis showed that all of the identified MeWRKYs had the conserved WRKY domain. Gene structure analysis suggested that the number of introns in MeWRKY genes varied from 1 to 5, with the majority of MeWRKY genes containing 3 exons. Expression profiles of MeWRKY genes in different tissues and in response to drought stress were analyzed using the RNA-seq technique. The results showed that 72 MeWRKY genes had differential expression in their transcript abundance and 78 MeWRKY genes were differentially expressed in response to drought stresses in different accessions, indicating their contribution to plant developmental processes and drought stress resistance in cassava. Finally, the expression of 9 WRKY genes was analyzed by qRT-PCR under osmotic, salt, ABA, H2O2, and cold treatments, indicating that MeWRKYs may be involved in different signaling pathways. Taken together, this systematic analysis identifies some tissue-specific and abiotic stress-responsive candidate MeWRKY genes for further functional assays in planta, and provides a solid foundation for understanding of abiotic stress responses and signal transduction mediated by WRKYs in cassava.http://journal.frontiersin.org/Journal/10.3389/fpls.2016.00025/fullGene Expressionabiotic stressRNA-SeqcassavaWRKY transcription factor |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Yunxie eWei Haitao eShi Zhiqiang eXia Weiwei eTie Zehong eDing Yan eYan Wenquan eWang Wei eHu Kaimian eLi |
spellingShingle |
Yunxie eWei Haitao eShi Zhiqiang eXia Weiwei eTie Zehong eDing Yan eYan Wenquan eWang Wei eHu Kaimian eLi Genome-wide identification and expression analysis of the WRKY gene family in cassava Frontiers in Plant Science Gene Expression abiotic stress RNA-Seq cassava WRKY transcription factor |
author_facet |
Yunxie eWei Haitao eShi Zhiqiang eXia Weiwei eTie Zehong eDing Yan eYan Wenquan eWang Wei eHu Kaimian eLi |
author_sort |
Yunxie eWei |
title |
Genome-wide identification and expression analysis of the WRKY gene family in cassava |
title_short |
Genome-wide identification and expression analysis of the WRKY gene family in cassava |
title_full |
Genome-wide identification and expression analysis of the WRKY gene family in cassava |
title_fullStr |
Genome-wide identification and expression analysis of the WRKY gene family in cassava |
title_full_unstemmed |
Genome-wide identification and expression analysis of the WRKY gene family in cassava |
title_sort |
genome-wide identification and expression analysis of the wrky gene family in cassava |
publisher |
Frontiers Media S.A. |
series |
Frontiers in Plant Science |
issn |
1664-462X |
publishDate |
2016-02-01 |
description |
The WRKY family, a large family of transcription factors (TFs) found in higher plants, plays central roles in many aspects of physiological processes and adaption to environment. However, little information is available regarding the WRKY family in cassava (Manihot esculenta). In the present study, 85 WRKY genes were identified from the cassava genome and classified into three groups according to conserved WRKY domains and zinc-finger structure. Conserved motif analysis showed that all of the identified MeWRKYs had the conserved WRKY domain. Gene structure analysis suggested that the number of introns in MeWRKY genes varied from 1 to 5, with the majority of MeWRKY genes containing 3 exons. Expression profiles of MeWRKY genes in different tissues and in response to drought stress were analyzed using the RNA-seq technique. The results showed that 72 MeWRKY genes had differential expression in their transcript abundance and 78 MeWRKY genes were differentially expressed in response to drought stresses in different accessions, indicating their contribution to plant developmental processes and drought stress resistance in cassava. Finally, the expression of 9 WRKY genes was analyzed by qRT-PCR under osmotic, salt, ABA, H2O2, and cold treatments, indicating that MeWRKYs may be involved in different signaling pathways. Taken together, this systematic analysis identifies some tissue-specific and abiotic stress-responsive candidate MeWRKY genes for further functional assays in planta, and provides a solid foundation for understanding of abiotic stress responses and signal transduction mediated by WRKYs in cassava. |
topic |
Gene Expression abiotic stress RNA-Seq cassava WRKY transcription factor |
url |
http://journal.frontiersin.org/Journal/10.3389/fpls.2016.00025/full |
work_keys_str_mv |
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