Cargando…

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

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 hemorrhag...

Descripción completa

Detalles Bibliográficos
Autores principales: Li, Peng-Fei, Guo, Shi-Chao, Liu, Tao, Cui, Hanjin, Feng, Dandan, Yang, Ali, Cheng, Zhe, Luo, Jiekun, Tang, Tao, Wang, Yang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Impact Journals 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7746353/
https://www.ncbi.nlm.nih.gov/pubmed/33203799
http://dx.doi.org/10.18632/aging.103938
_version_ 1783624780846465024
author Li, Peng-Fei
Guo, Shi-Chao
Liu, Tao
Cui, Hanjin
Feng, Dandan
Yang, Ali
Cheng, Zhe
Luo, Jiekun
Tang, Tao
Wang, Yang
author_facet Li, Peng-Fei
Guo, Shi-Chao
Liu, Tao
Cui, Hanjin
Feng, Dandan
Yang, Ali
Cheng, Zhe
Luo, Jiekun
Tang, Tao
Wang, Yang
author_sort Li, Peng-Fei
collection PubMed
description 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, this study systematically revealed the profiles of tsRNAs after an experimental intracerebral hemorrhage. These results may provide novel therapeutic targets following a hemorrhagic stroke in the chronic phase.
format Online
Article
Text
id pubmed-7746353
institution National Center for Biotechnology Information
language English
publishDate 2020
publisher Impact Journals
record_format MEDLINE/PubMed
spelling pubmed-77463532021-01-04 Integrative analysis of transcriptomes highlights potential functions of transfer-RNA-derived small RNAs in experimental intracerebral hemorrhage Li, Peng-Fei Guo, Shi-Chao Liu, Tao Cui, Hanjin Feng, Dandan Yang, Ali Cheng, Zhe Luo, Jiekun Tang, Tao Wang, Yang Aging (Albany NY) Research Paper 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, this study systematically revealed the profiles of tsRNAs after an experimental intracerebral hemorrhage. These results may provide novel therapeutic targets following a hemorrhagic stroke in the chronic phase. Impact Journals 2020-11-16 /pmc/articles/PMC7746353/ /pubmed/33203799 http://dx.doi.org/10.18632/aging.103938 Text en Copyright: © 2020 Li et al. https://creativecommons.org/licenses/by/3.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/3.0/) (CC BY 3.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Research Paper
Li, Peng-Fei
Guo, Shi-Chao
Liu, Tao
Cui, Hanjin
Feng, Dandan
Yang, Ali
Cheng, Zhe
Luo, Jiekun
Tang, Tao
Wang, Yang
Integrative analysis of transcriptomes highlights potential functions of transfer-RNA-derived small RNAs in experimental intracerebral hemorrhage
title Integrative analysis of transcriptomes highlights potential functions of transfer-RNA-derived small RNAs in experimental intracerebral hemorrhage
title_full Integrative analysis of transcriptomes highlights potential functions of transfer-RNA-derived small RNAs in experimental intracerebral hemorrhage
title_fullStr Integrative analysis of transcriptomes highlights potential functions of transfer-RNA-derived small RNAs in experimental intracerebral hemorrhage
title_full_unstemmed Integrative analysis of transcriptomes highlights potential functions of transfer-RNA-derived small RNAs in experimental intracerebral hemorrhage
title_short Integrative analysis of transcriptomes highlights potential functions of transfer-RNA-derived small RNAs in experimental intracerebral hemorrhage
title_sort integrative analysis of transcriptomes highlights potential functions of transfer-rna-derived small rnas in experimental intracerebral hemorrhage
topic Research Paper
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7746353/
https://www.ncbi.nlm.nih.gov/pubmed/33203799
http://dx.doi.org/10.18632/aging.103938
work_keys_str_mv AT lipengfei integrativeanalysisoftranscriptomeshighlightspotentialfunctionsoftransferrnaderivedsmallrnasinexperimentalintracerebralhemorrhage
AT guoshichao integrativeanalysisoftranscriptomeshighlightspotentialfunctionsoftransferrnaderivedsmallrnasinexperimentalintracerebralhemorrhage
AT liutao integrativeanalysisoftranscriptomeshighlightspotentialfunctionsoftransferrnaderivedsmallrnasinexperimentalintracerebralhemorrhage
AT cuihanjin integrativeanalysisoftranscriptomeshighlightspotentialfunctionsoftransferrnaderivedsmallrnasinexperimentalintracerebralhemorrhage
AT fengdandan integrativeanalysisoftranscriptomeshighlightspotentialfunctionsoftransferrnaderivedsmallrnasinexperimentalintracerebralhemorrhage
AT yangali integrativeanalysisoftranscriptomeshighlightspotentialfunctionsoftransferrnaderivedsmallrnasinexperimentalintracerebralhemorrhage
AT chengzhe integrativeanalysisoftranscriptomeshighlightspotentialfunctionsoftransferrnaderivedsmallrnasinexperimentalintracerebralhemorrhage
AT luojiekun integrativeanalysisoftranscriptomeshighlightspotentialfunctionsoftransferrnaderivedsmallrnasinexperimentalintracerebralhemorrhage
AT tangtao integrativeanalysisoftranscriptomeshighlightspotentialfunctionsoftransferrnaderivedsmallrnasinexperimentalintracerebralhemorrhage
AT wangyang integrativeanalysisoftranscriptomeshighlightspotentialfunctionsoftransferrnaderivedsmallrnasinexperimentalintracerebralhemorrhage