Abstract
Cabbage (Brassica oleracea var. capitata) is one of the most important cruciferous leafy vegetable crops and is widely cultivated all over the world. Its yield and quality are often affected by diseases such as cabbage black rot. 2R is a cabbage line that is newly resistant to black rot, which was created by radiation mutagenesis and backcross transfer. However, the underlying molecular bases and mechanisms of early-phase response of different resistant cabbage lines against black rot infections remain unknown. Here, we completed a comprehensive transcriptome profile analysis between resistant (2R) and susceptible (2T) cabbage lines after black rot inoculations. The results showed that the typical V-shaped lesions were found in inoculated plants after 15 days, and the symptoms in the susceptible cabbage lines (2T) were significant severe than that of the resistant 2R line. A total of 10,030 differentially expressed genes (DEGs) were identified, of which 384 DEGs were found to overlap in resistant and susceptible cabbage lines after black rot infections, suggesting those DEGs may play more important roles in cabbage early responses to black rot infections. We ranked the expression levels of DEGs among the four comparison sets of resistant and susceptible cabbage lines and, interestingly, found the top ten differential expression genes contained NBS-LRR genes, protein kinase genes and expansin genes. These findings provide a comprehensive differential transcriptome profile between resistant and susceptible cabbage lines and indicate some genes play key roles in the regulation of early response to black rot infections, which will help to understand the molecular resistance of cabbage against these infections.
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Acknowledgements
This work was supported by National Key Research and Development Program of China [2017YFD0101805], Jiangsu Agriculture Science and Technology Innovation Fund [CX(18)3068] and [CX(17)2019]. We also thank Genepioneer Biotechnologies for their help with the bioinformatics analyses.
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XH designed the study. LS, JT, JY, AZ, SL, BG, YY and LS carried out most of the experiments and data analysis. LS wrote the manuscript, generated the figures, and finalized the tables. All authors read and approved the final manuscript. The RNA-seq data has been deposited at https://nhccbase.njau.edu.cn/BOL/.
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13205_2020_2256_MOESM1_ESM.tif
Figure S1. Heat map of differential expression genes from different groups of resistant and sensitive cabbage lines. A: 2T0 vs 2T3D; B: 2R0 vs 2R3D; C: 2R0 vs 2T0; D: 2R3D vs 2T3D. (TIF 1238 kb)
13205_2020_2256_MOESM2_ESM.tif
Figure S2. GO annotation of DEGs from two cabbage lines before and after black rot infections. A: 2T0 vs 2T3D; B: 2R0 vs 2R3D; C: 2R0 vs 2T0; D: 2R3D vs 2T3D. (TIF 3651 kb)
13205_2020_2256_MOESM3_ESM.jpg
Figure S3. COG function classification of DEGs from different DEG sets. A: 2T0 vs 2T3D; B: 2R0 vs 2R3D; C: 2R0 vs 2T0; D: 2R3D vs 2T3D. (JPG 1317 kb)
13205_2020_2256_MOESM4_ESM.jpg
Figure S4. KEGG classification of DEGs from different DEG sets. A graph represents a KEGG pathway, the name of pathway sees the right plate. X-axis = enrichment factor. The smaller the enrichment factor, the more significant the enrichment level of differentially expressed genes in the pathway. Y-axis = log10 (Q value). The greater the ordinate, the greater significance of differential expression genes in the pathway. A: 2T0 vs 2T3D; B: 2R0 vs 2R3D; C: 2R0 vs 2T0; D: 2R3D vs 2T3D. (JPG 688 kb)
13205_2020_2256_MOESM5_ESM.tif
Figure S5. Differential expression of some resistant genes in the plant-pathogen interaction pathway. The red box represents gene up-regulation; the blue box represents gene down-regulation. (TIF 839 kb)
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Song, L., Tang, J., Yan, J. et al. Transcriptomic analysis of resistant and susceptible cabbage lines reveals differential expressions and candidate genes involved in cabbage early responses to black rot. 3 Biotech 10, 308 (2020). https://doi.org/10.1007/s13205-020-02256-8
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DOI: https://doi.org/10.1007/s13205-020-02256-8