Integrative analysis of transcriptomes highlights potential functions of transfer-RNA-derived small RNAs in experimental intracerebral hemorrhage.

Aging
Peng-Fei LiYang Wang

Abstract

Transfer-RNA-derived small RNAs (tsRNAs) are a novel class of short non-coding RNAs, that possess regulatory functions. However, their biological roles in hemorrhagic stroke are not understood. In this study, by RNA sequencing, we investigated the tsRNA expression profiles of intracerebral hemorrhagic rat brains in the chronic phase. A total of 331 tsRNAs were identified (308 in sham and 309 in intracerebral hemorrhage). Among them, the validation revealed that 7 tsRNAs (1 up-regulated and 6 down-regulated) were significantly changed. Subsequently, we predicted the target mRNAs of the 7 tsRNAs. Through integrative analysis, the predicted targets were validated by mRNA microarray data. Moreover, we confirmed the functions of tsRNAs targeting mRNAs in vitro. Furthermore, using bioinformatics tools and databases, we developed a tsRNA-mRNA-pathway interaction network to visualize their potential functions. Bioinformatics analyses and confirmatory experiments indicated that the altered genes were mainly enriched in several signaling pathways. These pathways were interrelated with intracerebral hemorrhage, such as response to oxidative stress, endocytosis, and regulation of G protein-coupled receptor signaling pathway. In summary, th...Continue Reading

Citations

Dec 31, 2020·International Journal of Molecular Sciences·T Truc My NguyenAnne Yaël Nossent
Aug 24, 2021·Frontiers in Oncology·Yong ZhuYouping Deng

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Datasets Mentioned

BETA
GSE109697

Methods Mentioned

BETA
tsRNA-Seq
transfection
deacylation
PCR
Assay

Software Mentioned

NovoAlign
miRanda
TargetScan
Cutadapt
Metascape
GraphPad
GraphPad Prism
RNAhybrid
RNA22
Cytoscape

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