Identification of key miRNAs and target genes in extracellular vesicles derived from low-intensity pulsed ultrasound-treated stem cells
ObjectivesThis study aimed to investigate the impact of low-intensity pulsed ultrasound (LIPUS) treatment on the miRNA and mRNA profiles of stem cell-derived extracellular vesicles (EVs). Specifically, it sought to identify key miRNAs and their target mRNAs associated with enhanced therapeutic effic...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2025-01-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fgene.2024.1407671/full |
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| author | Xin Yin Xin Yin Jialian Yi Fugang Mao Qisheng Tang Xinyu Zhang Xiaoyu Yang Hongqing Xie Linping Wang Shuifen Sun Xin Yu Xin Yu Jie Liu Lihong Jiang Lihong Jiang |
| author_facet | Xin Yin Xin Yin Jialian Yi Fugang Mao Qisheng Tang Xinyu Zhang Xiaoyu Yang Hongqing Xie Linping Wang Shuifen Sun Xin Yu Xin Yu Jie Liu Lihong Jiang Lihong Jiang |
| author_sort | Xin Yin |
| collection | DOAJ |
| description | ObjectivesThis study aimed to investigate the impact of low-intensity pulsed ultrasound (LIPUS) treatment on the miRNA and mRNA profiles of stem cell-derived extracellular vesicles (EVs). Specifically, it sought to identify key miRNAs and their target mRNAs associated with enhanced therapeutic efficacy in LIPUS-treated stem cell-derived EVs.MethodsUtilizing miRNA deep-sequencing data from the Gene Expression Omnibus database, differential gene analysis was performed. MiRNA-mRNA target analysis, functional and pathway enrichment analysis, protein-protein interaction network construction, and hub gene identification were conducted. Validation of differentially expressed miRNAs was performed via RT-qPCR in human umbilical cord mesenchymal stem cells (hUC-MSCs) treated with LIPUS.ResultsTen differentially expressed miRNAs were identified, with six upregulated and four downregulated miRNAs in LIPUS-treated stem cell-derived EVs. Functional enrichment analysis revealed involvement in biological processes such as regulation of metabolic processes, cellular component organization, and response to stress, as well as signaling pathways like cell cycle, MAPK signaling, and Hippo signaling. Protein-protein interaction network analysis identified key hub genes including MYC, GAPDH, HSP90AA1, EP300, JUN, PTEN, DAC1, STAT3, HSPA8, and HIF1A associated with LIPUS treatment. RT-qPCR validation confirmed differential expression of selected miRNAs (hsa-miR-933, hsa-miR-3943, hsa-miR-4633-5p, hsa-miR-592, hsa-miR-659-5p, hsa-miR-4766-3p) in LIPUS-treated hUC-MSCs.ConclusionThis study sheds light on the potential therapeutic mechanisms underlying LIPUS-treated stem cell-derived EVs. The identified differentially expressed miRNAs and their potential target mRNAs offer valuable insights into the biological processes influenced by LIPUS treatment. While further investigation is necessary to validate their roles as therapeutic targets, this study lays the groundwork for future research on optimizing SC-EV therapy with LIPUS preconditioning. |
| format | Article |
| id | doaj-art-6e2965ed089b41ecbb873fd1230cbbaf |
| institution | Kabale University |
| issn | 1664-8021 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Genetics |
| spelling | doaj-art-6e2965ed089b41ecbb873fd1230cbbaf2025-01-15T06:10:26ZengFrontiers Media S.A.Frontiers in Genetics1664-80212025-01-011510.3389/fgene.2024.14076711407671Identification of key miRNAs and target genes in extracellular vesicles derived from low-intensity pulsed ultrasound-treated stem cellsXin Yin0Xin Yin1Jialian Yi2Fugang Mao3Qisheng Tang4Xinyu Zhang5Xiaoyu Yang6Hongqing Xie7Linping Wang8Shuifen Sun9Xin Yu10Xin Yu11Jie Liu12Lihong Jiang13Lihong Jiang14Faculty of Life Science and Technology, Kunming University of Science and Technology, Kunming, ChinaThe Affiliated Hospital of Kunming University of Science and Technology, Kunming, ChinaThe First People’s Hospital of Yunnan Province, Kunming, ChinaThe First People’s Hospital of Yunnan Province, Kunming, ChinaThe First People’s Hospital of Yunnan Province, Kunming, ChinaThe First People’s Hospital of Yunnan Province, Kunming, ChinaThe First People’s Hospital of Yunnan Province, Kunming, ChinaThe First People’s Hospital of Yunnan Province, Kunming, ChinaThe First People’s Hospital of Yunnan Province, Kunming, ChinaThe First People’s Hospital of Yunnan Province, Kunming, ChinaFaculty of Life Science and Technology, Kunming University of Science and Technology, Kunming, ChinaThe Affiliated Hospital of Kunming University of Science and Technology, Kunming, ChinaThe First People’s Hospital of Yunnan Province, Kunming, ChinaFaculty of Life Science and Technology, Kunming University of Science and Technology, Kunming, ChinaThe Affiliated Hospital of Kunming University of Science and Technology, Kunming, ChinaObjectivesThis study aimed to investigate the impact of low-intensity pulsed ultrasound (LIPUS) treatment on the miRNA and mRNA profiles of stem cell-derived extracellular vesicles (EVs). Specifically, it sought to identify key miRNAs and their target mRNAs associated with enhanced therapeutic efficacy in LIPUS-treated stem cell-derived EVs.MethodsUtilizing miRNA deep-sequencing data from the Gene Expression Omnibus database, differential gene analysis was performed. MiRNA-mRNA target analysis, functional and pathway enrichment analysis, protein-protein interaction network construction, and hub gene identification were conducted. Validation of differentially expressed miRNAs was performed via RT-qPCR in human umbilical cord mesenchymal stem cells (hUC-MSCs) treated with LIPUS.ResultsTen differentially expressed miRNAs were identified, with six upregulated and four downregulated miRNAs in LIPUS-treated stem cell-derived EVs. Functional enrichment analysis revealed involvement in biological processes such as regulation of metabolic processes, cellular component organization, and response to stress, as well as signaling pathways like cell cycle, MAPK signaling, and Hippo signaling. Protein-protein interaction network analysis identified key hub genes including MYC, GAPDH, HSP90AA1, EP300, JUN, PTEN, DAC1, STAT3, HSPA8, and HIF1A associated with LIPUS treatment. RT-qPCR validation confirmed differential expression of selected miRNAs (hsa-miR-933, hsa-miR-3943, hsa-miR-4633-5p, hsa-miR-592, hsa-miR-659-5p, hsa-miR-4766-3p) in LIPUS-treated hUC-MSCs.ConclusionThis study sheds light on the potential therapeutic mechanisms underlying LIPUS-treated stem cell-derived EVs. The identified differentially expressed miRNAs and their potential target mRNAs offer valuable insights into the biological processes influenced by LIPUS treatment. While further investigation is necessary to validate their roles as therapeutic targets, this study lays the groundwork for future research on optimizing SC-EV therapy with LIPUS preconditioning.https://www.frontiersin.org/articles/10.3389/fgene.2024.1407671/fullstem cellsextracellular vesicles (EVs)low-intensity pulsed ultrasound (LIPUS)microRNAsbioinformaticsmembrane vesicles |
| spellingShingle | Xin Yin Xin Yin Jialian Yi Fugang Mao Qisheng Tang Xinyu Zhang Xiaoyu Yang Hongqing Xie Linping Wang Shuifen Sun Xin Yu Xin Yu Jie Liu Lihong Jiang Lihong Jiang Identification of key miRNAs and target genes in extracellular vesicles derived from low-intensity pulsed ultrasound-treated stem cells Frontiers in Genetics stem cells extracellular vesicles (EVs) low-intensity pulsed ultrasound (LIPUS) microRNAs bioinformatics membrane vesicles |
| title | Identification of key miRNAs and target genes in extracellular vesicles derived from low-intensity pulsed ultrasound-treated stem cells |
| title_full | Identification of key miRNAs and target genes in extracellular vesicles derived from low-intensity pulsed ultrasound-treated stem cells |
| title_fullStr | Identification of key miRNAs and target genes in extracellular vesicles derived from low-intensity pulsed ultrasound-treated stem cells |
| title_full_unstemmed | Identification of key miRNAs and target genes in extracellular vesicles derived from low-intensity pulsed ultrasound-treated stem cells |
| title_short | Identification of key miRNAs and target genes in extracellular vesicles derived from low-intensity pulsed ultrasound-treated stem cells |
| title_sort | identification of key mirnas and target genes in extracellular vesicles derived from low intensity pulsed ultrasound treated stem cells |
| topic | stem cells extracellular vesicles (EVs) low-intensity pulsed ultrasound (LIPUS) microRNAs bioinformatics membrane vesicles |
| url | https://www.frontiersin.org/articles/10.3389/fgene.2024.1407671/full |
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