{"title":"动态 N1-甲基腺苷 RNA 甲基化为番茄果实成熟提供了启示。","authors":"Lili Ma, Jinhua Zuo, Chunmei Bai, Anzhen Fu, Qing Wang, Zhongjing Zhou, Zhiping Deng, Jinjuan Tan, Mondher Bouzayen, Yanyan Zheng","doi":"10.1111/tpj.17095","DOIUrl":null,"url":null,"abstract":"<div>\n \n <p>N<sup>1</sup>-methyladenosine (m<sup>1</sup>A) methylation is an essential mechanism of gene regulation known to impact several biological processes in living organisms. However, little is known about the abundance, distribution, and functional significance of mRNA m<sup>1</sup>A modification during fruit ripening of tomato the main model species for fleshy fruits. Our study shows that m<sup>1</sup>A modifications are prevalent in tomato mRNA and are detected in lncRNA and circRNA. The distribution of m<sup>1</sup>A peaks in mRNA segments indicates that m<sup>1</sup>A is mainly enriched at the start codon and CDS regions. Assessing changes in global RNA methylation during fruit ripening in wild-type tomatoes and in the ripening-impaired <i>Nr</i> mutant affected in the ethylene receptor gene (<i>SlETR3</i>) revealed a decrease in the overall methylation levels from mature green (MG) stage to 6 days postbreaker (Br + 6). <i>Nr</i> mutant fruits show significantly lower methylation levels than Ailsa Craig (AC) fruits. Notably, differences in m<sup>1</sup>A methylation are well correlated to the expression levels of a number of key ripening-related genes. The integration of RNA-seq and MeRIP-seq data suggests a potential positive impact of m<sup>1</sup>A modifications on gene expression. In comparison to the AC fruits, the hypomethylation and reduced expression of ethylene-related genes, <i>ACO3</i>, <i>EBF1</i>, and <i>ERF.D6</i>, in the <i>Nr</i> mutants likely underpin the distinct phenotypic traits observed between the two fruit genotypes at the Br6 stage. Overall, our study brings further arguments supporting the potential significance of m<sup>1</sup>A methylation modifications in fruit ripening, a developmental process that is instrumental to plant reproduction and to fruit sensory and nutritional qualities.</p>\n </div>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"120 5","pages":"2014-2030"},"PeriodicalIF":6.2000,"publicationDate":"2024-11-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"The dynamic N1-methyladenosine RNA methylation provides insights into the tomato fruit ripening\",\"authors\":\"Lili Ma, Jinhua Zuo, Chunmei Bai, Anzhen Fu, Qing Wang, Zhongjing Zhou, Zhiping Deng, Jinjuan Tan, Mondher Bouzayen, Yanyan Zheng\",\"doi\":\"10.1111/tpj.17095\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<div>\\n \\n <p>N<sup>1</sup>-methyladenosine (m<sup>1</sup>A) methylation is an essential mechanism of gene regulation known to impact several biological processes in living organisms. However, little is known about the abundance, distribution, and functional significance of mRNA m<sup>1</sup>A modification during fruit ripening of tomato the main model species for fleshy fruits. Our study shows that m<sup>1</sup>A modifications are prevalent in tomato mRNA and are detected in lncRNA and circRNA. The distribution of m<sup>1</sup>A peaks in mRNA segments indicates that m<sup>1</sup>A is mainly enriched at the start codon and CDS regions. Assessing changes in global RNA methylation during fruit ripening in wild-type tomatoes and in the ripening-impaired <i>Nr</i> mutant affected in the ethylene receptor gene (<i>SlETR3</i>) revealed a decrease in the overall methylation levels from mature green (MG) stage to 6 days postbreaker (Br + 6). <i>Nr</i> mutant fruits show significantly lower methylation levels than Ailsa Craig (AC) fruits. Notably, differences in m<sup>1</sup>A methylation are well correlated to the expression levels of a number of key ripening-related genes. The integration of RNA-seq and MeRIP-seq data suggests a potential positive impact of m<sup>1</sup>A modifications on gene expression. In comparison to the AC fruits, the hypomethylation and reduced expression of ethylene-related genes, <i>ACO3</i>, <i>EBF1</i>, and <i>ERF.D6</i>, in the <i>Nr</i> mutants likely underpin the distinct phenotypic traits observed between the two fruit genotypes at the Br6 stage. Overall, our study brings further arguments supporting the potential significance of m<sup>1</sup>A methylation modifications in fruit ripening, a developmental process that is instrumental to plant reproduction and to fruit sensory and nutritional qualities.</p>\\n </div>\",\"PeriodicalId\":233,\"journal\":{\"name\":\"The Plant Journal\",\"volume\":\"120 5\",\"pages\":\"2014-2030\"},\"PeriodicalIF\":6.2000,\"publicationDate\":\"2024-11-04\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"The Plant Journal\",\"FirstCategoryId\":\"2\",\"ListUrlMain\":\"https://onlinelibrary.wiley.com/doi/10.1111/tpj.17095\",\"RegionNum\":1,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q1\",\"JCRName\":\"PLANT SCIENCES\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"The Plant Journal","FirstCategoryId":"2","ListUrlMain":"https://onlinelibrary.wiley.com/doi/10.1111/tpj.17095","RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"PLANT SCIENCES","Score":null,"Total":0}
The dynamic N1-methyladenosine RNA methylation provides insights into the tomato fruit ripening
N1-methyladenosine (m1A) methylation is an essential mechanism of gene regulation known to impact several biological processes in living organisms. However, little is known about the abundance, distribution, and functional significance of mRNA m1A modification during fruit ripening of tomato the main model species for fleshy fruits. Our study shows that m1A modifications are prevalent in tomato mRNA and are detected in lncRNA and circRNA. The distribution of m1A peaks in mRNA segments indicates that m1A is mainly enriched at the start codon and CDS regions. Assessing changes in global RNA methylation during fruit ripening in wild-type tomatoes and in the ripening-impaired Nr mutant affected in the ethylene receptor gene (SlETR3) revealed a decrease in the overall methylation levels from mature green (MG) stage to 6 days postbreaker (Br + 6). Nr mutant fruits show significantly lower methylation levels than Ailsa Craig (AC) fruits. Notably, differences in m1A methylation are well correlated to the expression levels of a number of key ripening-related genes. The integration of RNA-seq and MeRIP-seq data suggests a potential positive impact of m1A modifications on gene expression. In comparison to the AC fruits, the hypomethylation and reduced expression of ethylene-related genes, ACO3, EBF1, and ERF.D6, in the Nr mutants likely underpin the distinct phenotypic traits observed between the two fruit genotypes at the Br6 stage. Overall, our study brings further arguments supporting the potential significance of m1A methylation modifications in fruit ripening, a developmental process that is instrumental to plant reproduction and to fruit sensory and nutritional qualities.
期刊介绍:
Publishing the best original research papers in all key areas of modern plant biology from the world"s leading laboratories, The Plant Journal provides a dynamic forum for this ever growing international research community.
Plant science research is now at the forefront of research in the biological sciences, with breakthroughs in our understanding of fundamental processes in plants matching those in other organisms. The impact of molecular genetics and the availability of model and crop species can be seen in all aspects of plant biology. For publication in The Plant Journal the research must provide a highly significant new contribution to our understanding of plants and be of general interest to the plant science community.