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Title: A single-nucleotide polymorphism in WRKY33 promoter is associated with the cold sensitivity in cultivated tomato
Authors: Guo, Mingyue 
Yang, Fengjun 
Liu, Chenxu 
Zou, Jinping 
Qi, Zhenyu 
Fotopoulos, Vasileios 
Lu, Gang 
Yu, Jingquan 
Zhou, Jie 
Major Field of Science: Agricultural Sciences
Field Category: Agriculture Forestry and Fisheries
Keywords: W-box;WRKY33;Cold tolerance;Natural variation;Promoter;Tomato
Issue Date: Nov-2022
Source: New Phytologist, 2023, vol. 236, no. 3, pp. 989-1005
Volume: 236
Issue: 3
Start page: 989
End page: 1005
Journal: New Phytologist 
Abstract: Natural variations in cis-regulatory regions often affect crop phenotypes by altering gene expression. However, the mechanism of how promoter mutations affect gene expression and crop stress tolerance is still poorly understood. In this study, by analyzing RNA-sequencing (RNA-Seq) data and reverse transcription quantitative real-time PCR validation in the cultivated tomato and its wild relatives, we reveal that the transcripts of WRKY33 are almost unchanged in cold-sensitive cultivated tomato Solanum lycopersicum L. 'Ailsa Craig' but are significantly induced in cold-tolerant wild tomato relatives Solanum habrochaites LA1777 and Solanum pennellii LA0716 under cold stress. Overexpression of SlWRKY33 or ShWRKY33 positively regulates cold tolerance in tomato. Variant of the critical W-box in SlWRKY33 promoter results in the loss of self-transcription function of SlWRKY33 under cold stress. Analysis integrating RNA-Seq and chromatin immunoprecipitation sequencing data reveals that SlWRKY33 directly targets and induces multiple kinases, transcription factors, and molecular chaperone genes, such as CDPK11, MYBS3, and BAG6, thus enhancing cold tolerance. In addition, heat- and Botrytis-induced WRKY33s expression in both wild and cultivated tomatoes are independent of the critical W-box variation. Our findings suggest nucleotide polymorphism in cis-regulatory regions is crucial for different cold sensitivity between cultivated and wild tomato plants.
ISSN: 14698137
DOI: 10.1111/nph.18403
Rights: CC0 1.0 Universal
Type: Article
Affiliation : Cyprus University of Technology 
Zhejiang University 
Agricultural Ministry of China 
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