Genome-wide identification of long intergenic non-coding RNAs of responsive to powdery mildew stress in wheat (Triticum aestivum)
Wheat powdery mildew caused by Blumeria graminis f. sp. tritici is one of the most serious foliar diseases of wheat, causing grain yield and quality degradation by affecting plant photosynthesis. It is an effective method to improve the disease resistance of wheat plants by molecular breeding. With...
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Frontiers Media S.A.
2023-11-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2023.1297580/full |
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| author | Peina Cao Youning Wang Zhaolan Ma Xiao Xu Xiao Xu Dongfang Ma Dongfang Ma Lijun Yang |
| author_facet | Peina Cao Youning Wang Zhaolan Ma Xiao Xu Xiao Xu Dongfang Ma Dongfang Ma Lijun Yang |
| author_sort | Peina Cao |
| collection | DOAJ |
| description | Wheat powdery mildew caused by Blumeria graminis f. sp. tritici is one of the most serious foliar diseases of wheat, causing grain yield and quality degradation by affecting plant photosynthesis. It is an effective method to improve the disease resistance of wheat plants by molecular breeding. With the continuous development of sequencing technology, long intergenic noncoding RNAs (lincRNAs) have been discovered in many eukaryotes and act as key regulators of many cellular processes. In this study, 12 sets of RNA-seq data from wheat leaves pre- and post-pathogen infection were analyzed and 2,266 candidate lincRNAs were identified. Consistent with previous findings, lincRNA has shorter length and fewer exons than mRNA. The results of differential expression analysis showed that 486 DE-lincRNAs were selected as lincRNAs that could respond to powdery mildew stress. Since lincRNAs may be functionally related to their adjacent target genes, the target genes of these lincRNAs were predicted, and the GO and KEGG functional annotations of the predicted target genes were performed. Integrating the functions of target genes and the biological processes in which they were involved uncovered 23 lincRNAs that may promote or inhibit the occurrence of wheat powdery mildew. Co-expression patterns of lincRNAs with their adjacent mRNAs showed that some lincRNAs showed significant correlation with the expression patterns of their potential target genes. These suggested an involvement of lincRNAs in pathogen stress response, which will provide a further understanding of the pathogenic mechanism of wheat powdery mildew. |
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| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-03-09T18:21:57Z |
| publishDate | 2023-11-01 |
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| series | Frontiers in Plant Science |
| spelling | doaj.art-d3d7c2cab0104e08b52cd33983a70e322023-11-24T08:14:18ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2023-11-011410.3389/fpls.2023.12975801297580Genome-wide identification of long intergenic non-coding RNAs of responsive to powdery mildew stress in wheat (Triticum aestivum)Peina Cao0Youning Wang1Zhaolan Ma2Xiao Xu3Xiao Xu4Dongfang Ma5Dongfang Ma6Lijun Yang7Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of College of Agriculture, Yangtze University, Jingzhou, ChinaHubei Key Laboratory of Quality Control of Characteristic Fruits and Vegetables, Hubei Engineering University, Xiaogan, Hubei, ChinaEngineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of College of Agriculture, Yangtze University, Jingzhou, ChinaEngineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of College of Agriculture, Yangtze University, Jingzhou, ChinaJiangsu Academy of Agricultural Sciences, Jiangsu Coastal Area Institute of Agricultural Sciences, Yancheng, ChinaEngineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of College of Agriculture, Yangtze University, Jingzhou, ChinaKey Laboratory of Integrated Pest Management on Crop in Central China, Ministry of Agriculture/Hubei Province Key Laboratory for Control of Crop Diseases, Pest and Weeds/Institute of Plant Protection and Soil Science, Hubei Academy of Agricultural Sciences, Wuhan, Hubei, ChinaKey Laboratory of Integrated Pest Management on Crop in Central China, Ministry of Agriculture/Hubei Province Key Laboratory for Control of Crop Diseases, Pest and Weeds/Institute of Plant Protection and Soil Science, Hubei Academy of Agricultural Sciences, Wuhan, Hubei, ChinaWheat powdery mildew caused by Blumeria graminis f. sp. tritici is one of the most serious foliar diseases of wheat, causing grain yield and quality degradation by affecting plant photosynthesis. It is an effective method to improve the disease resistance of wheat plants by molecular breeding. With the continuous development of sequencing technology, long intergenic noncoding RNAs (lincRNAs) have been discovered in many eukaryotes and act as key regulators of many cellular processes. In this study, 12 sets of RNA-seq data from wheat leaves pre- and post-pathogen infection were analyzed and 2,266 candidate lincRNAs were identified. Consistent with previous findings, lincRNA has shorter length and fewer exons than mRNA. The results of differential expression analysis showed that 486 DE-lincRNAs were selected as lincRNAs that could respond to powdery mildew stress. Since lincRNAs may be functionally related to their adjacent target genes, the target genes of these lincRNAs were predicted, and the GO and KEGG functional annotations of the predicted target genes were performed. Integrating the functions of target genes and the biological processes in which they were involved uncovered 23 lincRNAs that may promote or inhibit the occurrence of wheat powdery mildew. Co-expression patterns of lincRNAs with their adjacent mRNAs showed that some lincRNAs showed significant correlation with the expression patterns of their potential target genes. These suggested an involvement of lincRNAs in pathogen stress response, which will provide a further understanding of the pathogenic mechanism of wheat powdery mildew.https://www.frontiersin.org/articles/10.3389/fpls.2023.1297580/fullwheatpowdery mildewlincRNAsexpression patterndifferential expression |
| spellingShingle | Peina Cao Youning Wang Zhaolan Ma Xiao Xu Xiao Xu Dongfang Ma Dongfang Ma Lijun Yang Genome-wide identification of long intergenic non-coding RNAs of responsive to powdery mildew stress in wheat (Triticum aestivum) Frontiers in Plant Science wheat powdery mildew lincRNAs expression pattern differential expression |
| title | Genome-wide identification of long intergenic non-coding RNAs of responsive to powdery mildew stress in wheat (Triticum aestivum) |
| title_full | Genome-wide identification of long intergenic non-coding RNAs of responsive to powdery mildew stress in wheat (Triticum aestivum) |
| title_fullStr | Genome-wide identification of long intergenic non-coding RNAs of responsive to powdery mildew stress in wheat (Triticum aestivum) |
| title_full_unstemmed | Genome-wide identification of long intergenic non-coding RNAs of responsive to powdery mildew stress in wheat (Triticum aestivum) |
| title_short | Genome-wide identification of long intergenic non-coding RNAs of responsive to powdery mildew stress in wheat (Triticum aestivum) |
| title_sort | genome wide identification of long intergenic non coding rnas of responsive to powdery mildew stress in wheat triticum aestivum |
| topic | wheat powdery mildew lincRNAs expression pattern differential expression |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2023.1297580/full |
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