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Global analysis of WRKY transcription factor superfamily in Setaria identifies potential candidates involved in abiotic stress signaling

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Title Global analysis of WRKY transcription factor superfamily in Setaria identifies potential candidates involved in abiotic stress signaling
 
Creator Muthamilarasan, Mehanathan
Bonthala, Venkata S.
Khandelwal, Rohit
Jaishankar, Jananee
Shweta, Shweta
Nawaz, Kashif
Prasad, Manoj
 
Subject WRKY transcription factors
Setaria italica
Setaria viridis
abiotic stress
stress signaling
expression profiling
comparative mapping
 
Description Accepted date: 12 October 2015
Transcription factors (TFs) are major players in stress signaling and constitute an integral part of signaling networks. Among the major TFs, WRKY proteins play pivotal roles in regulation of transcriptional reprogramming associated with stress responses. In view of this, genome- and transcriptome-wide identification of WRKY TF family was performed in the C4model plants, Setaria italica (SiWRKY) and S. viridis (SvWRKY), respectively. The study identified 105 SiWRKY and 44 SvWRKY proteins that were computationally analyzed for their physicochemical properties. Sequence alignment and phylogenetic analysis classified these proteins into three major groups, namely I, II, and III with majority of WRKY proteins belonging to group II (53 SiWRKY and 23 SvWRKY), followed by group III (39 SiWRKY and 11 SvWRKY) and group I (10 SiWRKY and 6 SvWRKY). Group II proteins were further classified into 5 subgroups (IIa to IIe) based on their phylogeny. Domain analysis showed the presence of WRKY motif and zinc finger-like structures in these proteins along with additional domains in a few proteins. All SiWRKY genes were physically mapped on the S. italica genome and their duplication analysis revealed that 10 and 8 gene pairs underwent tandem and segmental duplications, respectively. Comparative mapping of SiWRKY and SvWRKY genes in related C4 panicoid genomes demonstrated the orthologous relationships between these genomes. In silico expression analysis of SiWRKY and SvWRKY genes showed their differential expression patterns in different tissues and stress conditions. Expression profiling of candidate SiWRKY genes in response to stress (dehydration and salinity) and hormone treatments (abscisic acid, salicylic acid, and methyl jasmonate) suggested the putative involvement of SiWRKY066 and SiWRKY082 in stress and hormone signaling. These genes could be potential candidates for further characterization to delineate their functional roles in abiotic stress signaling.
Research on foxtail millet genomics at MP’s laboratory is funded
by the Core Grant of National Institute of Plant Genome
Research, New Delhi, India.
 
Date 2016-01-20T06:57:39Z
2016-01-20T06:57:39Z
2015
 
Type Article
 
Identifier Front. Plant Sc., 6: 910
1664-462X
http://172.16.0.77:8080/jspui/handle/123456789/549
http://journal.frontiersin.org/article/10.3389/fpls.2015.00910/abstract
10.3389/fpls.2015.00910
 
Language en_US
 
Publisher Frontiers Media S.A.