首页|Dynamic Landscapes of tRNA Transcriptomes and Translatomes in Diverse Mouse Tissues

Dynamic Landscapes of tRNA Transcriptomes and Translatomes in Diverse Mouse Tissues

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Although the function of tRNAs in the translational process is well established,it remains controversial whether tRNA abundance is tightly associated with translational efficiency(TE)in mammals.Moreover,how critically the expression of tRNAs contributes to the establish-ment of tissue-specific proteomes in mammals has not been well addressed.Here,we measured both tRNA expression using demethylase-tRNA sequencing(DM-tRNA-seq)and TE of mRNAs using ribosome-tagging sequencing(RiboTag-seq)in the brain,heart,and testis of mice.Remarkable variation in the expression of tRNA isodecoders was observed among different tissues.When the statistical effect of isodecoder-grouping on reducing variations is considered through permutating the anticodons,we observed an expected reduction in the variation of anticodon expression across all samples,an unexpected smaller variation of anticodon usage bias,and an unexpected larger vari-ation of tRNA isotype expression at amino acid level.Regardless of whether or not they share the same anticodons,the isodecoders encoding the same amino acids are co-expressed across different tissues.Based on the expression of tRNAs and the TE of mRNAs,we find that the tRNA adapta-tion index(tAI)and TE are significantly correlated in the same tissues but not between tissues;and tRNA expression and the amino acid composition of translating peptides are positively correlated in the same tissues but not between tissues.We therefore hypothesize that the tissue-specific expression of tRNAs might be due to post-transcriptional mechanisms.This study provides a resource for tRNA and translation studies,as well as novel insights into the dynamics of tRNAs and their roles in translational regulation.

Translational efficiencyTissue-specifictRNA expressionCodon usage biasAmino acid composition

Peng Yu、Siting Zhou、Yan Gao、Yu Liang、Wenbing Guo、Dan Ohtan Wang、Shuaiwen Ding、Shuibin Lin、Jinkai Wang、Yixian Cun

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Center for Translational Medicine,Precision Medicine Institute,The First Affiliated Hospital,Sun Yat-sen University,Guangzhou 510080,China

Department of Radiation Oncology,Affiliated Cancer Hospital & Institute of Guangzhou Medical University,Guangzhou 510080,China

Department of Medical Informatics,Zhongshan School of Medicine,Sun Yat-sen University,Guangzhou 510080,China

Center for Stem Cell Biology and Tissue Engineering,MOE Key Laboratory for Stem Cells and Tissue Engineering,Sun Yat-sen University,Guangzhou 510080,China

RIKEN Center for Biosystems Dynamics Research,Kobe 650-0047,Japan

Graduate School of Biostudies,Kyoto University,Kyoto 606-8501,Japan

Wuya College of Innovation,Shenyang Pharmaceutical University,Shenyang 110016,China

RNA Biomedical Institute,Sun Yat-sen Memorial Hospital,Sun Yat-sen University,Guangzhou 510080,China

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National Key R&D Program of ChinaNational Natural Science Foundation of ChinaNational Natural Science Foundation of ChinaNational Natural Science Foundation of ChinaNational Natural Science Foundation of ChinaNational Natural Science Foundation of ChinaNatural Science Foundation of Guangdong,ChinaNatural Science Foundation of Guangdong,ChinaChina Postdoctoral Science Foundation

2018YFA010720031970594317714468192205281974435319713352019B1515020112021A15151106502021M703755

2023

10.1016/j.gpb.2022.07.006

基因组蛋白质组与生物信息学报(英文版)
中国科学院北京基因组研究所

基因组蛋白质组与生物信息学报(英文版)

CSTPCDCSCD
影响因子：0.495
ISSN：1672-0229
年,卷(期)：2023.21(4)
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