Comparison of Transcriptome between Tolerant and Susceptible Rice Cultivar Reveals Positive and Negative Regulators of Response to <i>Rhizoctonia solani</i> in Rice
Rice (<i>Oryza sativa</i> L.) is one of the world’s most crucial food crops, as it currently supports more than half of the world’s population. However, the presence of sheath blight (SB) caused by <i>Rhizoctonia solani</i> has become a significant issue for rice agriculture....
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MDPI AG
2023-09-01
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| Series: | International Journal of Molecular Sciences |
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| Online Access: | https://www.mdpi.com/1422-0067/24/18/14310 |
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| author | Xiurong Yang Shuangyong Yan Yuejiao Li Guangsheng Li Shuqin Sun Junling Li Zhongqiu Cui Jianfei Huo Yue Sun Xiaojing Wang Fangzhou Liu |
| author_facet | Xiurong Yang Shuangyong Yan Yuejiao Li Guangsheng Li Shuqin Sun Junling Li Zhongqiu Cui Jianfei Huo Yue Sun Xiaojing Wang Fangzhou Liu |
| author_sort | Xiurong Yang |
| collection | DOAJ |
| description | Rice (<i>Oryza sativa</i> L.) is one of the world’s most crucial food crops, as it currently supports more than half of the world’s population. However, the presence of sheath blight (SB) caused by <i>Rhizoctonia solani</i> has become a significant issue for rice agriculture. This disease is responsible for causing severe yield losses each year and is a threat to global food security. The breeding of SB-resistant rice varieties requires a thorough understanding of the molecular mechanisms involved and the exploration of immune genes in rice. To this end, we conducted a screening of rice cultivars for resistance to SB and compared the transcriptome based on RNA-seq between the most tolerant and susceptible cultivars. Our study revealed significant transcriptomic differences between the tolerant cultivar ZhengDao 22 (ZD) and the most susceptible cultivar XinZhi No.1 (XZ) in response to <i>R. solani</i> invasion. Specifically, the tolerant cultivar showed 7066 differentially expressed genes (DEGs), while the susceptible cultivar showed only 60 DEGs. In further analysis, we observed clear differences in gene category between up- and down-regulated expression of genes (uDEGs and dDEGs) based on Gene Ontology (GO) classes in response to infection in the tolerant cultivar ZD, and then identified uDEGs related to cell surface pattern recognition receptors, the Ca<sup>2+</sup> ion signaling pathway, and the Mitogen-Activated Protein Kinase (MAPK) cascade that play a positive role against <i>R. solani.</i> In addition, DEGs of the jasmonic acid and ethylene signaling pathways were mainly positively regulated, whereas DEGs of the auxin signaling pathway were mainly negatively regulated. Transcription factors were involved in the immune response as either positive or negative regulators of the response to this pathogen. Furthermore, our results showed that chloroplasts play a crucial role and that reduced photosynthetic capacity is a critical feature of this response. The results of this research have important implications for better characterization of the molecular mechanism of SB resistance and for the development of resistant cultivars through molecular breeding methods. |
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| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-10T22:39:45Z |
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| spelling | doaj.art-dc7363938db2446388f1d665ef43f00c2023-11-19T11:10:55ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672023-09-0124181431010.3390/ijms241814310Comparison of Transcriptome between Tolerant and Susceptible Rice Cultivar Reveals Positive and Negative Regulators of Response to <i>Rhizoctonia solani</i> in RiceXiurong Yang0Shuangyong Yan1Yuejiao Li2Guangsheng Li3Shuqin Sun4Junling Li5Zhongqiu Cui6Jianfei Huo7Yue Sun8Xiaojing Wang9Fangzhou Liu10Institute of Plant Protection, Tianjin Academy of Agricultural Sciences, Tianjin 300381, ChinaInstitute of Crop Research, Tianjin Academy of Agricultural Sciences, Tianjin 300381, ChinaInstitute of Plant Protection, Tianjin Academy of Agricultural Sciences, Tianjin 300381, ChinaInstitute of Plant Protection, Tianjin Academy of Agricultural Sciences, Tianjin 300381, ChinaInstitute of Plant Protection, Tianjin Academy of Agricultural Sciences, Tianjin 300381, ChinaInstitute of Crop Research, Tianjin Academy of Agricultural Sciences, Tianjin 300381, ChinaInstitute of Crop Research, Tianjin Academy of Agricultural Sciences, Tianjin 300381, ChinaInstitute of Plant Protection, Tianjin Academy of Agricultural Sciences, Tianjin 300381, ChinaInstitute of Crop Research, Tianjin Academy of Agricultural Sciences, Tianjin 300381, ChinaInstitute of Crop Research, Tianjin Academy of Agricultural Sciences, Tianjin 300381, ChinaInstitute of Crop Research, Tianjin Academy of Agricultural Sciences, Tianjin 300381, ChinaRice (<i>Oryza sativa</i> L.) is one of the world’s most crucial food crops, as it currently supports more than half of the world’s population. However, the presence of sheath blight (SB) caused by <i>Rhizoctonia solani</i> has become a significant issue for rice agriculture. This disease is responsible for causing severe yield losses each year and is a threat to global food security. The breeding of SB-resistant rice varieties requires a thorough understanding of the molecular mechanisms involved and the exploration of immune genes in rice. To this end, we conducted a screening of rice cultivars for resistance to SB and compared the transcriptome based on RNA-seq between the most tolerant and susceptible cultivars. Our study revealed significant transcriptomic differences between the tolerant cultivar ZhengDao 22 (ZD) and the most susceptible cultivar XinZhi No.1 (XZ) in response to <i>R. solani</i> invasion. Specifically, the tolerant cultivar showed 7066 differentially expressed genes (DEGs), while the susceptible cultivar showed only 60 DEGs. In further analysis, we observed clear differences in gene category between up- and down-regulated expression of genes (uDEGs and dDEGs) based on Gene Ontology (GO) classes in response to infection in the tolerant cultivar ZD, and then identified uDEGs related to cell surface pattern recognition receptors, the Ca<sup>2+</sup> ion signaling pathway, and the Mitogen-Activated Protein Kinase (MAPK) cascade that play a positive role against <i>R. solani.</i> In addition, DEGs of the jasmonic acid and ethylene signaling pathways were mainly positively regulated, whereas DEGs of the auxin signaling pathway were mainly negatively regulated. Transcription factors were involved in the immune response as either positive or negative regulators of the response to this pathogen. Furthermore, our results showed that chloroplasts play a crucial role and that reduced photosynthetic capacity is a critical feature of this response. The results of this research have important implications for better characterization of the molecular mechanism of SB resistance and for the development of resistant cultivars through molecular breeding methods.https://www.mdpi.com/1422-0067/24/18/14310<i>Oryza sativa</i>rice sheath blighttranscriptomepositive regulatornegative regulator |
| spellingShingle | Xiurong Yang Shuangyong Yan Yuejiao Li Guangsheng Li Shuqin Sun Junling Li Zhongqiu Cui Jianfei Huo Yue Sun Xiaojing Wang Fangzhou Liu Comparison of Transcriptome between Tolerant and Susceptible Rice Cultivar Reveals Positive and Negative Regulators of Response to <i>Rhizoctonia solani</i> in Rice International Journal of Molecular Sciences <i>Oryza sativa</i> rice sheath blight transcriptome positive regulator negative regulator |
| title | Comparison of Transcriptome between Tolerant and Susceptible Rice Cultivar Reveals Positive and Negative Regulators of Response to <i>Rhizoctonia solani</i> in Rice |
| title_full | Comparison of Transcriptome between Tolerant and Susceptible Rice Cultivar Reveals Positive and Negative Regulators of Response to <i>Rhizoctonia solani</i> in Rice |
| title_fullStr | Comparison of Transcriptome between Tolerant and Susceptible Rice Cultivar Reveals Positive and Negative Regulators of Response to <i>Rhizoctonia solani</i> in Rice |
| title_full_unstemmed | Comparison of Transcriptome between Tolerant and Susceptible Rice Cultivar Reveals Positive and Negative Regulators of Response to <i>Rhizoctonia solani</i> in Rice |
| title_short | Comparison of Transcriptome between Tolerant and Susceptible Rice Cultivar Reveals Positive and Negative Regulators of Response to <i>Rhizoctonia solani</i> in Rice |
| title_sort | comparison of transcriptome between tolerant and susceptible rice cultivar reveals positive and negative regulators of response to i rhizoctonia solani i in rice |
| topic | <i>Oryza sativa</i> rice sheath blight transcriptome positive regulator negative regulator |
| url | https://www.mdpi.com/1422-0067/24/18/14310 |
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