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...
Autores principales: | , , , , , , , , , |
---|---|
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 |