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Genome-wide gene expression profiles in response to downy mildew in Chinese cabbage (Brassica rapa L. ssp. pekinensis)

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Abstracts

Downy mildew caused by Hyaloperonospora brassicae is one of the most damaging diseases of Chinese cabbage. In this study, we analyzed genome-wide gene expression profiles of a resistant line 318R and a susceptible line 361S of Chinese cabbage in response to downy mildew infection by high throughput RNA sequencing technology. More transcripts were identified in H. brassicae infected samples in both lines, especially in the susceptible line 361S. A total of 2297 and 3338 differentially expressed genes were identified in 318R and 361S, respectively, which are mainly involved in the plant-pathogen interaction pathway, plant hormone signal transduction pathway, and biosynthesis of secondary metabolites pathway. A total of 1284 genes were found to be differentially expressed in both lines, among which, 68 genes showed higher variation in the resistant line than in the susceptible line. These 68 genes, along with the 1012 genes that were only differentially expressed in the resistant line, were annotated to defense response genes, transcriptional factors, and cell wall related genes, which function in the plant-pathogen interaction pathway, protein processing in endoplasmic reticulum pathway, or metabolism pathways. These genes are important candidates for understanding the molecular mechanisms of host response to downy mildew.

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Acknowledgements

This work was supported by the Modern Agricultural Industrial Technology System Funding of Shandong Province, China (SDAIT-05-04); the National Natural Science Foundation of China (31401869); the China Agriculture Research System (CARS-25); the Project for Cultivation of Major Achievements in Science and Technology in SAAS, China (2015CGPY09); the Young Talents Training Program of Shandong Academy of Agricultural Science, China (NKYSCS-03); Taishan Scholar Program of Vegetable Genomics, China (2016-2020); and the Natural Science Foundation of Shandong Province, China (ZR2015YL071); and the Natural Science Foundation of Shandong Province, China (ZR2016CB16).

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  1. Jingjuan Li and Qian Ding contributed equally to this work.

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  1. Shandong Key Laboratory of Greenhouse Vegetable Biology, Institute of Vegetables and Flowers, Shandong Academy of Agricultural Sciences, Jinan, Shandong, China

    Jingjuan Li, Qian Ding, Fengde Wang, Huayin Li, Yihui Zhang, Lifeng Liu, Zigao Jiao & Jianwei Gao

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  1. Jingjuan Li
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Figure s1

Saturation analysis of the four DEGs libraries. A, B, C, and D were saturation analysis of318R–CK, 318R–T, 361S–CK, 361S–T library, respectively. (PDF 171 kb)

Figure s2

Randomness assessments of the four DEGs libraries. A, B, C, and D were randomness assessments of 318R–CK, 318R–T, 361S–CK, 361S–T library, respectively. (PDF 200 kb)

Figure s3

Gene classification based on gene ontology (GO) for DEGs after downy mildew infection. A, Gene classification based on GO for DEGs in 318R; B, Gene classification based on GO for DEGs in 361S. (PDF 664 kb)

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Li, J., Ding, Q., Wang, F. et al. Genome-wide gene expression profiles in response to downy mildew in Chinese cabbage (Brassica rapa L. ssp. pekinensis). Eur J Plant Pathol 151, 861–873 (2018). https://doi.org/10.1007/s10658-018-1427-6

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