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Transcriptome characterization and differential expression analysis of disease-responsive genes in alfalfa leaves infected by Pseudopeziza medicaginis

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Abstract

Common leaf spot (CLS) which caused by Pseudopeziza medicaginis is a serious foliar disease in alfalfa. Here, we report a differential expression model of transcriptome between leaves from a CLS-resistant line (RI vs. Rck) and a CLS-susceptible line (SI vs. Sck) after inoculation with P. medicaginis using RNA-seq technology on genome-wide. De novo assembling of clean reads generated 83,625 transcripts with 35,061 unigenes, of which, 85% were found to be able to match the reference genes. 3304 differentially expressed genes (DEGs) were detected in RI versus Rck library while 4276 DEGs were found in SI versus Sck library. Gene ontology function analysis and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis of these DEGs were performed in this work, and the results showed that some categories were significantly enriched in RI versus Rck library and not in SI versus Sck library including response to stimulus, response to stress, oxidation–reduction process, and oxidoreductase activity while KEGG pathway analysis suggested that plant-pathogen interaction was one of the main biological pathways in which DEGs in RI versus Rck library were enriched, but not that for DEGs in SI versus Sck library. Furthermore, about only 20 DEGs showed obviously being up-regulated in RI versus RCK library and being down-regulated or not being detected in SI versus SCK library and the analysis on the signal transduction pathways related to these DEGs indicated that both SA-mediated signal transduction pathway and ET-mediated signal transduction pathway were related to the CLS resistance of alfalfa. In this work, we comprehensively and systematically characterized the molecular basis of alfalfa in response to P. medicaginis for the first time. The information resulted from this study is useful for future investigating the mechanism of CLS resistance on molecular level in alfalfa.

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Acknowledgements

We thank Dr. Yuehui Chao, Beijing Forest University, for his enlightening discussions, and Professor Zhi Gui, Tianjin Agricultural University, for helpful comments on this manuscript.

Funding was provided by the Conservation of Forage Genetic Resources Program (Grant No. 2130135).

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  1. Yue Li and Haiyan Huang have contributed equally to this work.

Authors and Affiliations

  1. Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing, China

    Yue Li, Yu Wang & Qinghua Yuan

  2. Department of Pratacultural Science, Gansu Agricultural University, Lanzhou, China

    Haiyan Huang

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  1. Yue Li
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Correspondence to Yu Wang.

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10681_2018_2204_MOESM1_ESM.zip

Table S1. GO function annotation of assembled transcripts. Table S2. Up or down regulated genes in RI and RCK libraries. Table S3. Up or down regulated isoforms in RI and RCK libraries. Table S4. Up or down regulated genes in SI and SCK libraries. Table S5. Up or down regulated isoforms in SI and SCK libraries. Table S6. GO function enrichment analysis of up regulated transcripts in RI and RCK libraries. Table S7. GO function enrichment analysis of down regulated transcripts in RI and RCK libraries. Table S8. GO function enrichment analysis of up regulated transcripts in SI and SCK libraries. Table S9. GO function enrichment analysis of down regulated transcripts in SI and SCK libraries. Table S10. KEGG pathway enrichment analysis of up regulated transcripts in RI and RCK libraries. Table S11. KEGG pathway enrichment analysis of down regulated transcripts in RI and RCK libraries. Table S12. KEGG pathway enrichment analysis of up regulated transcripts in SI and SCK libraries. Table S13. KEGG pathway enrichment analysis of down regulated transcripts in SI and SCK libraries. Table S14. DEGs involved in disease resistance in RI and RCK libraries. Table S15. DEGs involved in disease resistance in SI and SCK libraries. (ZIP 26021 kb)

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Li, Y., Huang, H., Wang, Y. et al. Transcriptome characterization and differential expression analysis of disease-responsive genes in alfalfa leaves infected by Pseudopeziza medicaginis. Euphytica 214, 126 (2018). https://doi.org/10.1007/s10681-018-2204-5

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