Acta Agriculturae Boreali-Sinica ›› 2022, Vol. 37 ›› Issue (2): 171-182. doi: 10.7668/hbnxb.20192621

Special Issue: Tomato Biotechnology

• Resources & Environment·Plant Protection • Previous Articles     Next Articles

Identification and Expression Analysis of Bacterial Wilt Response Genes Based on RNA-seq in Tomato

SHI Jianlei1,2, XIONG Zili1, SU Shiwen1, WANG Kelei1, ZAI Wenshan1   

  1. 1.Wenzhou Vocational College of Science and Technology,Wenzhou 325006,China
    2.College of Agriculture,Fujian Agriculture and Forestry University,Fuzhou 350002,China
  • Received:2021-11-07 Published:2022-04-28


To explore bacterial wilt resistance genes,RNA sequencing was used to characterize the transcriptomes of resistant and susceptible tomato inbred lines with Ralstonia solanacearum inoculation(RsI).The results showed that a total of 75.02 Gb high-quality data were generated in 12 libraries.With the fold change(FC)≥2 and false discovery rate(FDR)<0.01 as the standard,970 and 695 differentially expressed genes(DEGs)were identified in the two tomato lines,respectively.The 1 312 DEGs accounted for 3.71% of the total.Among them,the numbers of up-regulated genes were 457 and 450,respectively,totaling 693;the numbers of down-regulated genes were 513 and 245,respectively,totaling 621.Among these DEGs,836 genotype-specific DEGs were highlighted.These DEGs were mainly divided into 47 functional groups such as metabolism,regulation,response,binding,and catalysis,and 88 metabolic pathways such as DNA replication,secondary metabolite synthesis,plant-pathogen interaction,and signal transduction by GO and KEGG annotation.Specifically,4 NBS resistance genes,6 plant-pathogen interaction genes,11 plant hormone signal transduction genes,22 defense response genes,32 protein kinases,65 transcription factors,and several other important functional genes were involved,indicating that they played important roles in response to Rs.Promoter analysis revealed that these genes possessed multiple defense and stress response elements.The output was confirmed using RT-qPCR for 50 representative genes.It was found that more than half of the genes were consistent with RNA-seq in expression.Solyc02g086980.3 and Solyc04g011670.3 might be involved in the resistance response,whereas Solyc01g073985.1,Solyc09g092580.4,Solyc09g098100.4,and Solyc10g081300.1 might be the opposite.Together,these gene expression profiles serve as fundamental information to understand the potential molecular basis in the response to Rs in tomato,and facilitate the application of related resistance genes in breeding.

Key words: Tomato, Ralstonia solanacearum, Transcriptome, Differentially expressed genes, Gene annotation, Quantitative expression

Cite this article

SHI Jianlei, XIONG Zili, SU Shiwen, WANG Kelei, ZAI Wenshan. Identification and Expression Analysis of Bacterial Wilt Response Genes Based on RNA-seq in Tomato[J]. Acta Agriculturae Boreali-Sinica, 2022, 37(2): 171-182. doi: 10.7668/hbnxb.20192621.

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