Transcriptome analysis of rice leaves in response to Rhizoctonia solani infection and reveals a novel regulatory mechani
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Plant Biotechnology Reports https://doi.org/10.1007/s11816-020-00630-9
ORIGINAL ARTICLE
Transcriptome analysis of rice leaves in response to Rhizoctonia solani infection and reveals a novel regulatory mechanism De Peng Yuan1 · Xiao Feng Xu1 · Woo‑Jong Hong2 · Si Ting Wang1 · Xin Tong Jia1 · Yang Liu1 · Shuang Li3,4 · Zhi Min Li1 · Qian Sun1 · Qiong Mei1 · Shuai Li1 · Ki‑Hong Jung2 · Song Hong Wei1 · Yuan Hu Xuan1 Received: 3 April 2020 / Accepted: 25 May 2020 © Korean Society for Plant Biotechnology 2020
Abstract Sheath blight disease (ShB) severely affects rice production; however, the details of defense against ShB remain unclear. To understand the rice defense mechanism against ShB, an RNA sequencing analysis was performed using Rhizoctonia solani inoculated rice leaves after 48 h of inoculation. Among them, 3417 genes were upregulated and 2532 were downregulated when compared with the control group (> twofold or 2, hyper P value 2 and visualized with ggplot2 R package. The KEGG pathway enrichment was performed to find out the significant pathway of the DEGs according to KEGG pathway. ClusterProfiler R package was used to select the significant pathway, and the threshold of significance was defined by P value of 1, P ≤ 0.05) were considered as DEGs, and 5949 genes were significantly changed, including 3417 upregulated and 2532 downregulated genes (Fig. 2b, Table S1).
Verification of DEGs by quantitative real‑time PCR (qRT‑PCR) To validate the RNA sequencing results, seven upregulated and two downregulated genes were randomly chosen and further confirmed by qRT-PCR. The qRT-PCR results indicate that seven genes (OsSWEET2a, OsSWEET14, OsWRKY108, OsERF096, OsNAC3, OsPR1b, and LOC_ Os07g36560) were induced, whereas OsMST1 and LOC_ Os03g24860 were repressed by inoculation with R. solani at 48 hpi (Fig. 3), suggesting that the RNA-Seq and qRT-PCR results are consistent.
GO, KEGG, and MapMan analyses of DEGs
Fig. 1 Expression of OsPBZ1 and OsPR1b in response to inoculation with Rhizoctonia solani AG1-IA. (a) One-month-old seedlings were inoculated with R. solani AG1-IA, and the leaves were sampled at 0, 24, 48, and 72 h post inoculation (hpi). R. solani infection-mediated expression patterns of OsPBZ1 (b) and OsPR1b (c) were analyzed by quantitative real-time PCR (qRT-PCR). Data are the means ± standard error (SE) of three repeated experiments. Significant differences between different time points compared with 0 hpi are shown (*P
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