Transcriptome-wide m6A methylation in natural yellow leaf of Catalpa fargesii
N6-methyladenosine (m6A) is the most abundant internal modification in eukaryotic messenger RNA, and involved in various biological processes in plants. However, the distribution features and functions of mRNA m6A methylation have been poorly explored in woody perennial plants. In this study, a new...
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| Format: | Article |
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Frontiers Media S.A.
2023-06-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2023.1167789/full |
| _version_ | 1797800342628335616 |
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| author | Yu Zhang Junhui Wang Wenjun Ma Nan Lu Pengyue Fu Yingying Yang Linjiao Zhao Jiwen Hu Guanzheng Qu Nan Wang |
| author_facet | Yu Zhang Junhui Wang Wenjun Ma Nan Lu Pengyue Fu Yingying Yang Linjiao Zhao Jiwen Hu Guanzheng Qu Nan Wang |
| author_sort | Yu Zhang |
| collection | DOAJ |
| description | N6-methyladenosine (m6A) is the most abundant internal modification in eukaryotic messenger RNA, and involved in various biological processes in plants. However, the distribution features and functions of mRNA m6A methylation have been poorly explored in woody perennial plants. In this study, a new natural variety with yellow-green leaves, named Maiyuanjinqiu, was screened from the seedlings of Catalpa fargesii. Based on the preliminary experiment, the m6A methylation levels in the leaves of Maiyuanjinqiu were significantly higher than those in C. fargesii. Furthermore, a parallel analysis of m6A-seq and RNA-seq was carried out in different leaf color sectors. The result showed that m6A modification were mostly identified around the 3’-untranslated regions (3’-UTR), which was slightly negatively correlated with the mRNA abundance. KEGG and GO analyses showed that m6A methylation genes were associated with photosynthesis, pigments biosynthesis and metabolism, oxidation-reduction and response to stress, etc. The overall increase of m6A methylation levels in yellow-green leaves might be associated with the decreased the expression of RNA demethylase gene CfALKBH5. The silencing of CfALKBH5 caused a chlorotic phenotype and increased m6A methylation level, which further confirmed our hypothesis. Our results suggested that mRNA m6A methylation could be considered as a vital epigenomic mark and contribute to the natural variations in plants. |
| first_indexed | 2024-03-13T04:32:48Z |
| format | Article |
| id | doaj.art-1a2388dab697490d93cdd232cc2b253f |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-03-13T04:32:48Z |
| publishDate | 2023-06-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-1a2388dab697490d93cdd232cc2b253f2023-06-19T08:04:44ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2023-06-011410.3389/fpls.2023.11677891167789Transcriptome-wide m6A methylation in natural yellow leaf of Catalpa fargesiiYu Zhang0Junhui Wang1Wenjun Ma2Nan Lu3Pengyue Fu4Yingying Yang5Linjiao Zhao6Jiwen Hu7Guanzheng Qu8Nan Wang9State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry and Northeast Forestry University, Beijing, ChinaState Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry and Northeast Forestry University, Beijing, ChinaState Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry and Northeast Forestry University, Beijing, ChinaState Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry and Northeast Forestry University, Beijing, ChinaState Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry and Northeast Forestry University, Beijing, ChinaState Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry and Northeast Forestry University, Beijing, ChinaHekou Yao Autonomous County Forestry and Grassland Bureau, Hekou, ChinaState Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry and Northeast Forestry University, Beijing, ChinaState Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry and Northeast Forestry University, Beijing, ChinaState Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry and Northeast Forestry University, Beijing, ChinaN6-methyladenosine (m6A) is the most abundant internal modification in eukaryotic messenger RNA, and involved in various biological processes in plants. However, the distribution features and functions of mRNA m6A methylation have been poorly explored in woody perennial plants. In this study, a new natural variety with yellow-green leaves, named Maiyuanjinqiu, was screened from the seedlings of Catalpa fargesii. Based on the preliminary experiment, the m6A methylation levels in the leaves of Maiyuanjinqiu were significantly higher than those in C. fargesii. Furthermore, a parallel analysis of m6A-seq and RNA-seq was carried out in different leaf color sectors. The result showed that m6A modification were mostly identified around the 3’-untranslated regions (3’-UTR), which was slightly negatively correlated with the mRNA abundance. KEGG and GO analyses showed that m6A methylation genes were associated with photosynthesis, pigments biosynthesis and metabolism, oxidation-reduction and response to stress, etc. The overall increase of m6A methylation levels in yellow-green leaves might be associated with the decreased the expression of RNA demethylase gene CfALKBH5. The silencing of CfALKBH5 caused a chlorotic phenotype and increased m6A methylation level, which further confirmed our hypothesis. Our results suggested that mRNA m6A methylation could be considered as a vital epigenomic mark and contribute to the natural variations in plants.https://www.frontiersin.org/articles/10.3389/fpls.2023.1167789/fullCatalpa fargesiiCfALKBH5EpitranscriptomicsRNA methylationN6-methyladenosineyellow-green leaf |
| spellingShingle | Yu Zhang Junhui Wang Wenjun Ma Nan Lu Pengyue Fu Yingying Yang Linjiao Zhao Jiwen Hu Guanzheng Qu Nan Wang Transcriptome-wide m6A methylation in natural yellow leaf of Catalpa fargesii Frontiers in Plant Science Catalpa fargesii CfALKBH5 Epitranscriptomics RNA methylation N6-methyladenosine yellow-green leaf |
| title | Transcriptome-wide m6A methylation in natural yellow leaf of Catalpa fargesii |
| title_full | Transcriptome-wide m6A methylation in natural yellow leaf of Catalpa fargesii |
| title_fullStr | Transcriptome-wide m6A methylation in natural yellow leaf of Catalpa fargesii |
| title_full_unstemmed | Transcriptome-wide m6A methylation in natural yellow leaf of Catalpa fargesii |
| title_short | Transcriptome-wide m6A methylation in natural yellow leaf of Catalpa fargesii |
| title_sort | transcriptome wide m6a methylation in natural yellow leaf of catalpa fargesii |
| topic | Catalpa fargesii CfALKBH5 Epitranscriptomics RNA methylation N6-methyladenosine yellow-green leaf |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2023.1167789/full |
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