Multi-Omics Characterization of Circular RNA-Encoded Novel Proteins Associated With Bladder Outlet Obstruction
Bladder outlet obstruction (BOO) is a common urologic disease associated with poorly understood molecular mechanisms. This study aimed to investigate the possible involvements of circRNAs (circular RNAs) and circRNA-encoded proteins in BOO development. The rat BOO model was established by the partia...
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| Format: | Article |
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Frontiers Media S.A.
2022-01-01
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| Series: | Frontiers in Cell and Developmental Biology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fcell.2021.772534/full |
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| author | Baoyi Zhu Zhanfang Kang Sihua Zhu Yuying Zhang Xiangmao Lai Lilin Zhou Hai Huang Xiaofeng Gao Chonghe Jiang Jianwen Zeng |
| author_facet | Baoyi Zhu Zhanfang Kang Sihua Zhu Yuying Zhang Xiangmao Lai Lilin Zhou Hai Huang Xiaofeng Gao Chonghe Jiang Jianwen Zeng |
| author_sort | Baoyi Zhu |
| collection | DOAJ |
| description | Bladder outlet obstruction (BOO) is a common urologic disease associated with poorly understood molecular mechanisms. This study aimed to investigate the possible involvements of circRNAs (circular RNAs) and circRNA-encoded proteins in BOO development. The rat BOO model was established by the partial bladder outlet obstruction surgery. Differential expression of circRNA and protein profiles were characterized by deep RNA sequencing and iTRAQ quantitative proteomics respectively. Novel proteins encoded by circRNAs were predicted through ORF (open reading frame) selection using the GETORF software and verified by the mass spectrometry in proteomics, combined with the validation of their expressional alterations by quantitative RT-PCR. Totally 3,051 circRNAs were differentially expressed in bladder tissues of rat BOO model with widespread genomic distributions, including 1,414 up-regulated, and 1,637 down-regulated circRNAs. Our following quantitative proteomics revealed significant changes of 85 proteins in rat BOO model, which were enriched in multiple biological processes and signaling pathways such as the PPAR and Wnt pathways. Among them, 21 differentially expressed proteins were predicted to be encoded by circRNAs and showed consistent circRNA and protein levels in rat BOO model. The expression levels of five protein-encoding circRNAs were further validated by quantitative RT-PCR and mass spectrometry. The circRNA and protein profiles were substantially altered in rat BOO model, with great expressional changes of circRNA-encoded novel proteins. |
| first_indexed | 2024-04-11T20:57:18Z |
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| institution | Directory Open Access Journal |
| issn | 2296-634X |
| language | English |
| last_indexed | 2024-04-11T20:57:18Z |
| publishDate | 2022-01-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Cell and Developmental Biology |
| spelling | doaj.art-53383f48fc134e5c91ce710b5de8e7ab2022-12-22T04:03:38ZengFrontiers Media S.A.Frontiers in Cell and Developmental Biology2296-634X2022-01-01910.3389/fcell.2021.772534772534Multi-Omics Characterization of Circular RNA-Encoded Novel Proteins Associated With Bladder Outlet ObstructionBaoyi Zhu0Zhanfang Kang1Sihua Zhu2Yuying Zhang3Xiangmao Lai4Lilin Zhou5Hai Huang6Xiaofeng Gao7Chonghe Jiang8Jianwen Zeng9Department of Urology, The Sixth Affiliated Hospital of Guangzhou Medical University, Qingyuan, ChinaDepartment of Basic Medical Research, The Sixth Affiliated Hospital of Guangzhou Medical University, Qingyuan, ChinaDepartment of Urology, The Sixth Affiliated Hospital of Guangzhou Medical University, Qingyuan, ChinaDepartment of Urology, The Sixth Affiliated Hospital of Guangzhou Medical University, Qingyuan, ChinaDepartment of Urology, The Sixth Affiliated Hospital of Guangzhou Medical University, Qingyuan, ChinaDepartment of Urology, The Sixth Affiliated Hospital of Guangzhou Medical University, Qingyuan, ChinaDepartment of Urology, Sun Yat-sen Memorial Hospital, Sun Yat-sen University, Guangzhou, ChinaDepartment of Urology, Changhai Hospital, Naval Medical University, Shanghai, ChinaDepartment of Urology, The Sixth Affiliated Hospital of Guangzhou Medical University, Qingyuan, ChinaDepartment of Urology, The Sixth Affiliated Hospital of Guangzhou Medical University, Qingyuan, ChinaBladder outlet obstruction (BOO) is a common urologic disease associated with poorly understood molecular mechanisms. This study aimed to investigate the possible involvements of circRNAs (circular RNAs) and circRNA-encoded proteins in BOO development. The rat BOO model was established by the partial bladder outlet obstruction surgery. Differential expression of circRNA and protein profiles were characterized by deep RNA sequencing and iTRAQ quantitative proteomics respectively. Novel proteins encoded by circRNAs were predicted through ORF (open reading frame) selection using the GETORF software and verified by the mass spectrometry in proteomics, combined with the validation of their expressional alterations by quantitative RT-PCR. Totally 3,051 circRNAs were differentially expressed in bladder tissues of rat BOO model with widespread genomic distributions, including 1,414 up-regulated, and 1,637 down-regulated circRNAs. Our following quantitative proteomics revealed significant changes of 85 proteins in rat BOO model, which were enriched in multiple biological processes and signaling pathways such as the PPAR and Wnt pathways. Among them, 21 differentially expressed proteins were predicted to be encoded by circRNAs and showed consistent circRNA and protein levels in rat BOO model. The expression levels of five protein-encoding circRNAs were further validated by quantitative RT-PCR and mass spectrometry. The circRNA and protein profiles were substantially altered in rat BOO model, with great expressional changes of circRNA-encoded novel proteins.https://www.frontiersin.org/articles/10.3389/fcell.2021.772534/fullcircRNAiTRAQ proteomicscircRNA-encoded proteinprotein-encoding circRNAbladder outlet obstruction |
| spellingShingle | Baoyi Zhu Zhanfang Kang Sihua Zhu Yuying Zhang Xiangmao Lai Lilin Zhou Hai Huang Xiaofeng Gao Chonghe Jiang Jianwen Zeng Multi-Omics Characterization of Circular RNA-Encoded Novel Proteins Associated With Bladder Outlet Obstruction Frontiers in Cell and Developmental Biology circRNA iTRAQ proteomics circRNA-encoded protein protein-encoding circRNA bladder outlet obstruction |
| title | Multi-Omics Characterization of Circular RNA-Encoded Novel Proteins Associated With Bladder Outlet Obstruction |
| title_full | Multi-Omics Characterization of Circular RNA-Encoded Novel Proteins Associated With Bladder Outlet Obstruction |
| title_fullStr | Multi-Omics Characterization of Circular RNA-Encoded Novel Proteins Associated With Bladder Outlet Obstruction |
| title_full_unstemmed | Multi-Omics Characterization of Circular RNA-Encoded Novel Proteins Associated With Bladder Outlet Obstruction |
| title_short | Multi-Omics Characterization of Circular RNA-Encoded Novel Proteins Associated With Bladder Outlet Obstruction |
| title_sort | multi omics characterization of circular rna encoded novel proteins associated with bladder outlet obstruction |
| topic | circRNA iTRAQ proteomics circRNA-encoded protein protein-encoding circRNA bladder outlet obstruction |
| url | https://www.frontiersin.org/articles/10.3389/fcell.2021.772534/full |
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