Raspberry root transcriptomic response to Phytophthora root rot infections and TIBA treatment. Studying the effect of TIBA on raspberry root-Phytophthora rubi interactions

RNA-seq was used to characterise the transcriptomic response in the root tips of raspberry cv. Glen Dee (susceptible) to infection by Phytophthora rubi and treatment with an auxin transport inhibitor, TIBA. Hydroponically grown raspberry plants with established root systems were transferred to Erlenmeyer flasks containing water, with or without P. rubi inoculum and with or without TIBA. Roots were treated with 1ppm or 10ppm TIBA. After 7dpi, the root tips of three independent biological samples were collected. Differential expression analysis showed significant expression changes in roots treated with 10ppm TIBA. Analysis of differentially expressed genes identified amongst many, genes related to auxin signalling and defence response.