RNA-sequencing for transcriptomic analysis of chili peppers induced by Serratia plymuthica strain UBCF_13

Abstract

Non-pathogenic bacteria are used as biocontrol agents in plants because of their capability to induce the plant’s resistance system through the ISR [Induction Systemic Resistance] mechanism. Rhizobacteria are known for their ability to signal the biosynthesis of jasmonic acid and ethylene, also stimulate an increased expression level of resistance genes and auxin in plants. RNA-sequencing can be used to analyze the transcriptomic profile of plants. In this study, we used the bacteria Serratia plymuthica strain UBCF_13 to induce the resistance system of chili plants. This study aimed to obtain information on the transcriptome level of chili after being induced by the bacteria. This study is expected to be a useful reference for generating transcriptome data of bacteria UBCF_13 as a biocontrol agent. For RNA sequencing, we used two different plants, namely plants without and with the induction of bacteria UBCF_13. The bacteria UBCF_13 [OD600 1] was applied 12 days after planting in the root area. Total RNA was isolated from plant roots after 14 days of treatment. Differential gene expression, GO enrichment, and KEGG analysis showed that the resistance genes expression increases. Genes involved in hormone signal transduction like tryptophan metabolism is affected by the induction of bacteria UBCF_13. The AUX1 [Auxin Influx Carrier], SAUR [Small Auxin Up RNA], and GH3 [Gretchen Hagen 3] genes family in the tryptophan metabolism become upregulated.