Exploration of RNA-binding proteins identified RPS27 as a potential regulator associated with Kaposi’s sarcoma development
Abstract Background Kaposi's sarcoma (KS) is a locally aggressive, multicentric tumor. RNA-binding proteins (RBPs) are pivotal for post-transcriptional regulation in various tumors. However, the aberrantly expressed RBP genes and their regulatory patterns in KS remain unclear. This study aimed...
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BMC
2025-02-01
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| Online Access: | https://doi.org/10.1186/s12885-025-13790-0 |
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| author | Jingzhan Zhang Peng Wang Tingting Li Dong Luo Yuanyuan Qu Yuan Ding Xiaojing Kang |
| author_facet | Jingzhan Zhang Peng Wang Tingting Li Dong Luo Yuanyuan Qu Yuan Ding Xiaojing Kang |
| author_sort | Jingzhan Zhang |
| collection | DOAJ |
| description | Abstract Background Kaposi's sarcoma (KS) is a locally aggressive, multicentric tumor. RNA-binding proteins (RBPs) are pivotal for post-transcriptional regulation in various tumors. However, the aberrantly expressed RBP genes and their regulatory patterns in KS remain unclear. This study aimed to identify relevant RBP genes in KS and assess the potential functions and molecular interactions of RPS27, a dysregulated RBP in KS tissues, Methods Matched KS lesions and normal control tissues from ten patients were chosen for the study. Differentially expressed genes (DEGs) were first identified by RNA-sequencing, and results were validated through an independent public RNA-seq dataset (GSE147704). Among the DEGs, RBPs were selected for further analysis, with RPS27 chosen for detailed investigation due to its dysregulation in KS tissues. RT-qPCR and immunohistochemistry were employed to validate RPS27 expression. Cellular experiments were conducted for dysregulated RPS27 to explore its functions. Additionally, improved RNA immunoprecipitation (iRIP)-seq was performed to investigate potential binding interactions of RPS27 in KS. Results We identified 828 DEGs through RNA-seq, with 367 overlapping DEGs confirmed by the public RNA-seq dataset. We obtained 48 RBP genes from the overlapping DEGs, including 3 upregulated (PCBP3, L1TD1, and PEG10) and 45 downregulated RBP genes in KS. Notably, downregulated RBPs included TECR, PUSL1, DQX1, MAT1A, RACK1, EEF1A2, and EEF1B2, and the remaining downregulated RBPs were all ribosomal protein genes, including RPS27, which was selected for further exploration. Cellular experiments confirmed that RPS27 inhibition could promote cellular proliferation, migration, invasion, and angiogenesis of HUVECs, consistent with its downregulation in KS. iRIP-seq and RNA-seq analyses showed RPS27’s ability to selectively bind to 26 DEGs and showed correlation. The majority of RPS27-bound DEGs were ribosomal protein genes, including RPL8, RPL13, RPL13A, RPL18, RPL19, RPL23, RPLP1, RPL27A, RPL40, RPS2, RPS4X, RPS13, RPS18, RPS21, and RPS27, which were associated with viral transcription and gene expression. Conclusion Our results identified dysregulated RBP genes in KS and explored the cellular functions and molecular targets of RPS27, indicating its potential regulatory role in KS development. |
| format | Article |
| id | doaj-art-9442a2534055433297c2e449ea1f654c |
| institution | DOAJ |
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| language | English |
| publishDate | 2025-02-01 |
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| series | BMC Cancer |
| spelling | doaj-art-9442a2534055433297c2e449ea1f654c2025-08-20T03:00:39ZengBMCBMC Cancer1471-24072025-02-0125111410.1186/s12885-025-13790-0Exploration of RNA-binding proteins identified RPS27 as a potential regulator associated with Kaposi’s sarcoma developmentJingzhan Zhang0Peng Wang1Tingting Li2Dong Luo3Yuanyuan Qu4Yuan Ding5Xiaojing Kang6Graduate School of Xinjiang Medical UniversityXinjiang Key Laboratory of Dermatology ResearchXinjiang Key Laboratory of Dermatology ResearchXinjiang Key Laboratory of Dermatology ResearchXinjiang Key Laboratory of Dermatology ResearchXinjiang Key Laboratory of Dermatology ResearchXinjiang Key Laboratory of Dermatology ResearchAbstract Background Kaposi's sarcoma (KS) is a locally aggressive, multicentric tumor. RNA-binding proteins (RBPs) are pivotal for post-transcriptional regulation in various tumors. However, the aberrantly expressed RBP genes and their regulatory patterns in KS remain unclear. This study aimed to identify relevant RBP genes in KS and assess the potential functions and molecular interactions of RPS27, a dysregulated RBP in KS tissues, Methods Matched KS lesions and normal control tissues from ten patients were chosen for the study. Differentially expressed genes (DEGs) were first identified by RNA-sequencing, and results were validated through an independent public RNA-seq dataset (GSE147704). Among the DEGs, RBPs were selected for further analysis, with RPS27 chosen for detailed investigation due to its dysregulation in KS tissues. RT-qPCR and immunohistochemistry were employed to validate RPS27 expression. Cellular experiments were conducted for dysregulated RPS27 to explore its functions. Additionally, improved RNA immunoprecipitation (iRIP)-seq was performed to investigate potential binding interactions of RPS27 in KS. Results We identified 828 DEGs through RNA-seq, with 367 overlapping DEGs confirmed by the public RNA-seq dataset. We obtained 48 RBP genes from the overlapping DEGs, including 3 upregulated (PCBP3, L1TD1, and PEG10) and 45 downregulated RBP genes in KS. Notably, downregulated RBPs included TECR, PUSL1, DQX1, MAT1A, RACK1, EEF1A2, and EEF1B2, and the remaining downregulated RBPs were all ribosomal protein genes, including RPS27, which was selected for further exploration. Cellular experiments confirmed that RPS27 inhibition could promote cellular proliferation, migration, invasion, and angiogenesis of HUVECs, consistent with its downregulation in KS. iRIP-seq and RNA-seq analyses showed RPS27’s ability to selectively bind to 26 DEGs and showed correlation. The majority of RPS27-bound DEGs were ribosomal protein genes, including RPL8, RPL13, RPL13A, RPL18, RPL19, RPL23, RPLP1, RPL27A, RPL40, RPS2, RPS4X, RPS13, RPS18, RPS21, and RPS27, which were associated with viral transcription and gene expression. Conclusion Our results identified dysregulated RBP genes in KS and explored the cellular functions and molecular targets of RPS27, indicating its potential regulatory role in KS development.https://doi.org/10.1186/s12885-025-13790-0Kaposi’s sarcomaRNA-binding proteinsRibosomal protein S27RNA-sequencingImproved RNA-binding protein immunoprecipitation |
| spellingShingle | Jingzhan Zhang Peng Wang Tingting Li Dong Luo Yuanyuan Qu Yuan Ding Xiaojing Kang Exploration of RNA-binding proteins identified RPS27 as a potential regulator associated with Kaposi’s sarcoma development BMC Cancer Kaposi’s sarcoma RNA-binding proteins Ribosomal protein S27 RNA-sequencing Improved RNA-binding protein immunoprecipitation |
| title | Exploration of RNA-binding proteins identified RPS27 as a potential regulator associated with Kaposi’s sarcoma development |
| title_full | Exploration of RNA-binding proteins identified RPS27 as a potential regulator associated with Kaposi’s sarcoma development |
| title_fullStr | Exploration of RNA-binding proteins identified RPS27 as a potential regulator associated with Kaposi’s sarcoma development |
| title_full_unstemmed | Exploration of RNA-binding proteins identified RPS27 as a potential regulator associated with Kaposi’s sarcoma development |
| title_short | Exploration of RNA-binding proteins identified RPS27 as a potential regulator associated with Kaposi’s sarcoma development |
| title_sort | exploration of rna binding proteins identified rps27 as a potential regulator associated with kaposi s sarcoma development |
| topic | Kaposi’s sarcoma RNA-binding proteins Ribosomal protein S27 RNA-sequencing Improved RNA-binding protein immunoprecipitation |
| url | https://doi.org/10.1186/s12885-025-13790-0 |
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