Abundant mRNA m¹A modification in dinoflagellates: a new layer of gene regulation.

IF 6.5 1区生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY EMBO Reports Pub Date : 2024-11-01 Epub Date: 2024-09-02 DOI:10.1038/s44319-024-00234-2

Chongping Li, Ying Li, Jia Guo, Yuci Wang, Xiaoyan Shi, Yangyi Zhang, Nan Liang, Honghui Ma, Jie Yuan, Jiawei Xu, Hao Chen

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Abstract

Dinoflagellates, a class of unicellular eukaryotic phytoplankton, exhibit minimal transcriptional regulation, representing a unique model for exploring gene expression. The biosynthesis, distribution, regulation, and function of mRNA N1-methyladenosine (m¹A) remain controversial due to its limited presence in typical eukaryotic mRNA. This study provides a comprehensive map of m¹A in dinoflagellate mRNA and shows that m¹A, rather than N6-methyladenosine (m⁶A), is the most prevalent internal mRNA modification in various dinoflagellate species, with an asymmetric distribution along mature transcripts. In Amphidinium carterae, we identify 6549 m¹A sites characterized by a non-tRNA T-loop-like sequence motif within the transcripts of 3196 genes, many of which are involved in regulating carbon and nitrogen metabolism. Enriched within 3'UTRs, dinoflagellate mRNA m¹A levels negatively correlate with translation efficiency. Nitrogen depletion further decreases mRNA m¹A levels. Our data suggest that distinctive patterns of m¹A modification might influence the expression of metabolism-related genes through translational control.

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甲藻中丰富的 mRNA m1A 修饰：基因调控的新层次。

甲藻是一类单细胞真核浮游植物，表现出极少的转录调控，是探索基因表达的独特模型。由于 mRNA N1-甲基腺苷（m1A）在典型真核生物 mRNA 中的存在有限，因此其生物合成、分布、调控和功能仍存在争议。这项研究提供了甲藻 mRNA 中 m1A 的全面分布图，并表明 m1A 而不是 N6-甲基腺苷（m6A）是各种甲藻中最普遍的 mRNA 内部修饰，而且沿着成熟转录本呈不对称分布。在Amphidinium carterae中，我们在3196个基因的转录本中发现了6549个m1A位点，其特征是非tRNA T-环状序列图案，其中许多基因参与调控碳和氮的代谢。甲藻 mRNA m1A 富集在 3'UTR 中，其水平与翻译效率呈负相关。氮耗竭会进一步降低 mRNA m1A 水平。我们的数据表明，m1A修饰的独特模式可能会通过翻译控制影响代谢相关基因的表达。

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

EMBO Reports 生物-生化与分子生物学

CiteScore

11.20

自引率

1.30%

发文量

267

审稿时长

1 months

期刊介绍： EMBO Reports is a scientific journal that specializes in publishing research articles in the fields of molecular biology, cell biology, and developmental biology. The journal is known for its commitment to publishing high-quality, impactful research that provides novel physiological and functional insights. These insights are expected to be supported by robust evidence, with independent lines of inquiry validating the findings. The journal's scope includes both long and short-format papers, catering to different types of research contributions. It values studies that: Communicate major findings: Articles that report significant discoveries or advancements in the understanding of biological processes at the molecular, cellular, and developmental levels. Confirm important findings: Research that validates or supports existing knowledge in the field, reinforcing the reliability of previous studies. Refute prominent claims: Studies that challenge or disprove widely accepted ideas or hypotheses in the biosciences, contributing to the correction and evolution of scientific understanding. Present null data: Papers that report negative results or findings that do not support a particular hypothesis, which are crucial for the scientific process as they help to refine or redirect research efforts. EMBO Reports is dedicated to maintaining high standards of scientific rigor and integrity, ensuring that the research it publishes contributes meaningfully to the advancement of knowledge in the life sciences. By covering a broad spectrum of topics and encouraging the publication of both positive and negative results, the journal plays a vital role in promoting a comprehensive and balanced view of scientific inquiry.