mRNAdesigner: an integrated web server for optimizing mRNA design and protein translation in eukaryotes.

IF 16.6 2区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY
Ouyang Mo,Zhuo Zhang,Xiang Cheng,Liqi Zhu,Kaixiang Zhang,Niubing Zhang,Justin Li,Honglin Li,Shixin Fan,Xuan Li,Pei Hao
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引用次数: 0

Abstract

Messenger RNA (mRNA) therapy has revolutionized modern medicine through its rapid development capabilities and ability to induce effective immune responses, becoming a powerful weapon against infectious diseases. The expression level of target proteins from mRNA sequences is primarily influenced by translational efficiency and stability, which can be significantly enhanced by modifying the 5' and 3' untranslated regions (UTRs), codon adaptation index, GC content, and secondary structure. To address the challenges of optimizing mRNA design, we have developed mRNAdesigner (https://www.biosino.org/mRNAdesigner/), a web server specifically designed to improve mRNA stability and translational efficiency in eukaryotes. Users can input a coding sequence (CDS) along with optional 5' UTR and 3' UTR, and the tool optimizes the CDS by reducing unpaired regions, minimizing complex stem-loop structures, and mitigating the use of rare codons while adhering to user-defined GC content preferences. Additionally, mRNAdesigner identifies optimal UTR sequences to enhance translation efficiency and stability. As an open-access computational resource, mRNAdesigner supports full-length mRNA design, enabling researchers to generate high-expression mRNA sequences for efficient protein production in eukaryotic expression systems, providing extra support for vaccine development and protein therapeutics. This is the first such tool that was made open accessible to the public.
mRNAdesigner:一个用于优化真核生物mRNA设计和蛋白质翻译的集成web服务器。
信使RNA (mRNA)疗法以其快速发展的能力和诱导有效免疫反应的能力彻底改变了现代医学,成为对抗传染病的有力武器。mRNA序列中靶蛋白的表达水平主要受翻译效率和稳定性的影响,通过修改5′和3′非翻译区(UTRs)、密码子适应指数、GC含量和二级结构可以显著提高翻译效率和稳定性。为了解决优化mRNA设计的挑战,我们开发了mRNAdesigner (https://www.biosino.org/mRNAdesigner/),这是一个专门设计用于提高真核生物mRNA稳定性和翻译效率的web服务器。用户可以输入编码序列(CDS)以及可选的5' UTR和3' UTR,该工具通过减少未配对区域、最小化复杂的茎环结构和减少稀有密码子的使用来优化CDS,同时坚持用户定义的GC内容首选项。此外,mrnaddesigner识别最佳的UTR序列,以提高翻译效率和稳定性。作为一种开放获取的计算资源,mrnaddesigner支持全长mRNA设计,使研究人员能够在真核表达系统中生成高效蛋白质生产的高表达mRNA序列,为疫苗开发和蛋白质治疗提供额外支持。这是第一个向公众开放的工具。
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
Nucleic Acids Research
Nucleic Acids Research 生物-生化与分子生物学
CiteScore
27.10
自引率
4.70%
发文量
1057
审稿时长
2 months
期刊介绍: Nucleic Acids Research (NAR) is a scientific journal that publishes research on various aspects of nucleic acids and proteins involved in nucleic acid metabolism and interactions. It covers areas such as chemistry and synthetic biology, computational biology, gene regulation, chromatin and epigenetics, genome integrity, repair and replication, genomics, molecular biology, nucleic acid enzymes, RNA, and structural biology. The journal also includes a Survey and Summary section for brief reviews. Additionally, each year, the first issue is dedicated to biological databases, and an issue in July focuses on web-based software resources for the biological community. Nucleic Acids Research is indexed by several services including Abstracts on Hygiene and Communicable Diseases, Animal Breeding Abstracts, Agricultural Engineering Abstracts, Agbiotech News and Information, BIOSIS Previews, CAB Abstracts, and EMBASE.
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