A naturally occurring SNP modulates thermotolerance divergence among grapevines

Haiyang Chen, Haibo Yu, Ling Yuan, Lingchao Kong, Shenchang Li, Xiongjun Cao, Yang Li, Yi Wang, Ling Lin, Rongrong Guo, Taili Xie, Wei Duan, Zhanwu Dai, Peige Fan, Shaohua Li, Zhenchang Liang and Lijun Wang ()
Additional contact information
Haiyang Chen: The Chinese Academy of Sciences
Haibo Yu: The Chinese Academy of Sciences
Ling Yuan: Lexington
Lingchao Kong: The Chinese Academy of Sciences
Shenchang Li: The Chinese Academy of Sciences
Xiongjun Cao: Guangxi Academy of Agricultural Sciences
Yang Li: The Chinese Academy of Sciences
Yi Wang: The Chinese Academy of Sciences
Ling Lin: Guangxi Academy of Agricultural Sciences
Rongrong Guo: Guangxi Academy of Agricultural Sciences
Taili Xie: Guangxi Academy of Agricultural Sciences
Wei Duan: The Chinese Academy of Sciences
Zhanwu Dai: The Chinese Academy of Sciences
Peige Fan: The Chinese Academy of Sciences
Shaohua Li: The Chinese Academy of Sciences
Zhenchang Liang: The Chinese Academy of Sciences
Lijun Wang: The Chinese Academy of Sciences

Nature Communications, 2025, vol. 16, issue 1, 1-18

Abstract: Abstract With the increasing challenges posed by global warming and climate change, heat stress has become a significant threat to the sustainable production of grapevines. However, the genetic basis of grapevine thermotolerance remains poorly understood. Here, we combine genome-wide association study with transcriptomic profiling to identify TTC4 (thermotolerance on chromosome 4), a gene encoding a WRKY transcription factor, as a key determinant of thermotolerance in grapevine. TTC4 directly activates two thermotolerance-related genes, HSP18.1 and APX3. We also identify a heat-suppressed repressor SPL13 (SQUAMOSA-promoter binding protein-like 13) that cannot bind to the GTAT element (TTC4T(7631)) in intron 2 of TTC4, but can bind to the natural variant, GTAC (TTC4C(7631)). Grapevine accessions with TTC4C/C(7631) genotype exhibit significantly lower thermotolerance compared to those with the TTC4T/T(7631) and TTC4C/T(7631) genotypes. This fine-tuned regulation contributes to thermotolerance divergence among grapevine populations. The TTC4T(7631) haplotype holds significant potential as a genetic resource for breeding thermotolerant grapevine varieties.

Date: 2025
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DOI: 10.1038/s41467-025-60209-2

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