Extensive profiling of the expressions of tRNAs and tRNA-derived fragments(tRFs)reveals the complexities of tRNA and tRF populations in plants

作     者：Xuan Ma Chunyan Liu Xiaocong Kong Jing Liu Siju Zhang Shanshan Liang Weijiang Luan Xiaofeng Cao Xuan Ma;Chunyan Liu;Xiaocong Kong;Jing Liu;Siju Zhang;Shanshan Liang;Weijiang Luan;Xiaofeng Cao

作者机构：Tianjin Key Laboratory of Animal and Plant ResistanceCollege of Life SciencesTianjin Normal UniversinTianjin 300387China State Key Laboratory of Plant Genomics and National Center for Plant Gene ResearchInstitute of Genetics and Developmental BiologyChinese Academy of Sciences.Beijing 100101China 

出 版 物：《Science China(Life Sciences)》 (中国科学（生命科学英文版）)

年 卷 期：2021年第64卷第4期

页      面：495-511页

核心收录：

学科分类：0710[理学-生物学] 0830[工学-环境科学与工程（可授工学、理学、农学学位）] 07[理学] 071007[理学-遗传学] 

基　　金：supported by the National Natural Science Foundation of China(31871321,31788103,31770874) Tianjin Natural Science Foundation of China(16JCZDJC33400) Tianjin Rice Industrial Technology System of China(ITTRRS2018006)。 

主　　题：tRNA tRFs tRNA halves tiny tRFs tRNA-seq 

摘      要：Evidence is emerging that t RNA-derived fragments(t RFs)are regulatory molecules.Studies of t RFs in plants have been based on conventional small RNA sequencing,and focused on profiling of t RF-5 and t RF-3 species.A more comprehensive and quantitative analysis of the entire t RF population is highly necessary.Here,we employ t RNA-seq and YAMAT-seq,and develop a bioinformatics tool to comprehensively profile the expressions of t RNAs and t RFs in plants.We show that in Arabidopsis,approximately half of t RNA genes are extremely weakly expressed,accounting for only 1%of total t RNA abundance,while~12%of t RNA genes contribute to~80%of t RNA abundance.Our t RNA sequencings in various plants reveal that t RNA expression profiles exhibit a cross-species conserved pattern.By characterizing the composition of a highly heterogeneous t RF population,we show that t RNA halves and previously unnoticed 10–16-nt tiny t RFs represent substantial portions.The highly accumulated 13-nt and 16-nt tiny t RFs in Arabidopsis indicate that tiny t RFs are not random t RNA degradation products.Finally,we provide a user-friendly database for displaying the dynamic spatiotemporal expressions of t RNAs and t RFs in the model plants Arabidopsis and rice.