The dynamic N1-methyladenosine RNA methylation provides insights into the tomato fruit ripening

IF 6.2 1区 生物学 Q1 PLANT SCIENCES
Lili Ma, Jinhua Zuo, Chunmei Bai, Anzhen Fu, Qing Wang, Zhongjing Zhou, Zhiping Deng, Jinjuan Tan, Mondher Bouzayen, Yanyan Zheng
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Abstract

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.

动态 N1-甲基腺苷 RNA 甲基化为番茄果实成熟提供了启示。
N1-甲基腺苷(m1A)甲基化是基因调控的一种重要机制,已知会影响生物体内的多个生物过程。然而,人们对番茄(肉质水果的主要模式物种)果实成熟过程中 mRNA m1A 修饰的丰度、分布和功能意义知之甚少。我们的研究表明,m1A修饰在番茄mRNA中很普遍,在lncRNA和circRNA中也能检测到。m1A 峰在 mRNA 片段中的分布表明,m1A 主要富集在起始密码子和 CDS 区域。评估野生型番茄和受乙烯受体基因(SlETR3)影响的成熟障碍 Nr 突变体果实成熟过程中全局 RNA 甲基化的变化发现,从成熟绿色(MG)阶段到破壁后 6 天(Br + 6),整体甲基化水平有所下降。Nr 突变体果实的甲基化水平明显低于 Ailsa Craig(AC)果实。值得注意的是,m1A 甲基化的差异与一些关键成熟相关基因的表达水平密切相关。RNA-seq 和 MeRIP-seq 数据的整合表明,m1A 修饰对基因表达有潜在的积极影响。与 AC 果实相比,Nr 突变体中乙烯相关基因 ACO3、EBF1 和 ERF.D6 的低甲基化和表达减少可能是两种果实基因型在 Br6 阶段观察到的不同表型特征的基础。总之,我们的研究进一步证明了 m1A 甲基化修饰在果实成熟过程中的潜在意义,这一发育过程对植物的繁殖以及果实的感官和营养品质至关重要。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
The Plant Journal
The Plant Journal 生物-植物科学
CiteScore
13.10
自引率
4.20%
发文量
415
审稿时长
2.3 months
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.
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