Transcriptome-wide identification of WRKY transcription factor and their expression profiles under salt stress in sweetp
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Plant Biotechnology Reports https://doi.org/10.1007/s11816-020-00635-4
ORIGINAL ARTICLE
Transcriptome‑wide identification of WRKY transcription factor and their expression profiles under salt stress in sweetpotato (Ipomoea batatas L.) Zhen Qin1,2 · Fuyun Hou1,2 · Aixian Li1,2 · Shuxu Dong1,2 · Qingmei Wang1,2 · Liming Zhang1,2,3 Received: 22 April 2020 / Accepted: 16 June 2020 © Korean Society for Plant Biotechnology 2020
Abstract WRKY transcription factors play a key role in regulating plant growth, development, and stress responses. Although many WRKY transcription factors have been discovered in plants, the WRKY transcription factors in sweetpotato have not been systematically studied. Here, we identified 79 IbWRKY transcription factors based on the transcriptome data of sweetpotato. The amino acid length of the protein ranged from 162 to 711 amino acids. Frequency analysis of amino acids in IbWRKY transcription factors found highest levels of serine. Subcellular localization analysis found 77 IbWRKY proteins localized in the nucleus. The IbWRKY proteins were clustered into three groups based on their structural and phylogenetic characteristics. Seven WRKY proteins contained the WRKY domain variations WRKYG(K/T)K as revealed by multiple sequence alignment. Structural analysis showed that IbWRKY proteins of the same subfamily had similar motifs. Transcriptome data analysis found that a total of 35 IbWRKY genes showed significant changes of the expression level after the 150 mM NaCl treatment. We selected 16 IbWRKY genes for real-time quantitative PCR verification and found that the data were consistent with the transcriptome data. In summary, this study provides a systematical analysis of the IbWRKY transcription factors, which will lay a solid foundation for further characterization of the regulatory mechanism of the IbWRKY genes under salt stress in sweetpotato. Keywords Sweetpotato · WRKY transcription factor · Transcriptome · Salt stress
Introduction
Zhen Qin and Fuyun Hou contributed equally to this work. Electronic supplementary material The online version of this article (https://doi.org/10.1007/s11816-020-00635-4) contains supplementary material, which is available to authorized users.
A large number of WRKY transcription factors have been found since the first WRKY protein IbSPF1 was discovered in sweetpotato (Ipomoea batatas L.) (Ishiguro and Nakamura 1994). A DNA binding domain containing highly conserved WRKY motifs and zinc-finger motifs (Eulgem et al. 2000; Oelmüller 2014) has been found in the WRKY proteins, which can bind to the cis-acting element specifically
* Qingmei Wang wang‑[email protected]
Shuxu Dong [email protected]
* Liming Zhang [email protected]
1
Zhen Qin [email protected]
Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan, Shandong, China
2
Scientific Observing and Experimental Station of Tuber and Root Crops in Huang-Huai-Hai Region, Ministry of Agriculture, Jinan, Shandong, China
3
College of Life Science, Shandong Normal Universi
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