Feng Yong, Jiang Mengyun, Yu Weichang, Zhou Jiannan
Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China.
State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng, China.
Front Plant Sci. 2023 Feb 15;14:1094715. doi: 10.3389/fpls.2023.1094715. eCollection 2023.
The roles of short/small open reading frames (sORFs) have been increasingly recognized in recent years due to the rapidly growing number of sORFs identified in various organisms due to the development and application of the Ribo-Seq technique, which sequences the ribosome-protected footprints (RPFs) of the translating mRNAs. However, special attention should be paid to RPFs used to identify sORFs in plants due to their small size (~30 nt) and the high complexity and repetitiveness of the plant genome, particularly for polyploidy species. In this work, we compare different approaches to the identification of plant sORFs, discuss the advantages and disadvantages of each method, and provide a guide for choosing different methods in plant sORF studies.
近年来，由于核糖体测序（Ribo-Seq）技术的发展与应用，在各种生物体中鉴定出的短/小开放阅读框（sORF）数量迅速增加，sORF的作用也越来越受到认可。Ribo-Seq技术对正在翻译的mRNA的核糖体保护足迹（RPF）进行测序。然而，由于植物RPF的大小较小（约30个核苷酸）以及植物基因组的高度复杂性和重复性，特别是对于多倍体物种，在植物中用于鉴定sORF的RPF应特别注意。在这项工作中，我们比较了鉴定植物sORF的不同方法，讨论了每种方法的优缺点，并为植物sORF研究中选择不同方法提供了指南。
