Transcriptome Analysis of Retinoic Acid-Inducible Gene I Overexpression Reveals the Potential Genes for Autophagy-Related Negative Regulation
Retinoic acid-inducible gene I (RIG-I) serves as an essential viral RNA sensor for innate immune. The activation of the RIG-I-like receptors (RLRs) pathway triggers many regulations for the outcome of type I interferon, including ubiquitination, dephosphorylation, ISGylation, and autophagy. However,...
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2022-06-01
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| Online Access: | https://www.mdpi.com/2073-4409/11/13/2009 |
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| author | Shaotang Ye Chen Tan Xiaoyun Yang Ji Wang Qi Li Liang Xu Zhen Wang Jianwei Mao Jingyu Wang Kui Cheng Aolei Chen Pei Zhou Shoujun Li |
| author_facet | Shaotang Ye Chen Tan Xiaoyun Yang Ji Wang Qi Li Liang Xu Zhen Wang Jianwei Mao Jingyu Wang Kui Cheng Aolei Chen Pei Zhou Shoujun Li |
| author_sort | Shaotang Ye |
| collection | DOAJ |
| description | Retinoic acid-inducible gene I (RIG-I) serves as an essential viral RNA sensor for innate immune. The activation of the RIG-I-like receptors (RLRs) pathway triggers many regulations for the outcome of type I interferon, including ubiquitination, dephosphorylation, ISGylation, and autophagy. However, the autophagy-related regulation of RIG-I is still not fully understood. To investigate the potentially unknown genes related to autophagy-related regulation of RIG-I, we firstly confirm the induction of autophagy derived by overexpression of RIG-I. Furthermore, the autophagy inducer and inhibitor drugs were used in different assays. The results showed autophagy could control the activation of RLRs pathway and expression of exogenous RIG-I. In addition, we carried out the transcriptome analysis of overexpression of RIG-I in vitro. Differentially expressed genes (DEGs) in GO and KEGG signaling pathways enrichment provided a newly complex network. Finally, the validation of qPCR indicated that the DEGs PTPN22, PRKN, OTUD7B, and SIRT2 were correlated to the negative regulation of excessive expression of RIG-I. Taken together, our study contributed new insights into a more comprehensive understanding of the regulation of excessive expression of RIG-I. It provided the potential candidate genes for autophagy-related negative regulation for further investigation. |
| first_indexed | 2024-03-09T22:01:43Z |
| format | Article |
| id | doaj.art-920e43734b4f4e27bd6ff69eb7373982 |
| institution | Directory Open Access Journal |
| issn | 2073-4409 |
| language | English |
| last_indexed | 2024-03-09T22:01:43Z |
| publishDate | 2022-06-01 |
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| record_format | Article |
| series | Cells |
| spelling | doaj.art-920e43734b4f4e27bd6ff69eb73739822023-11-23T19:48:01ZengMDPI AGCells2073-44092022-06-011113200910.3390/cells11132009Transcriptome Analysis of Retinoic Acid-Inducible Gene I Overexpression Reveals the Potential Genes for Autophagy-Related Negative RegulationShaotang Ye0Chen Tan1Xiaoyun Yang2Ji Wang3Qi Li4Liang Xu5Zhen Wang6Jianwei Mao7Jingyu Wang8Kui Cheng9Aolei Chen10Pei Zhou11Shoujun Li12College of Veterinary Medicine, South China Agricultural University, Guangzhou 510642, ChinaLanzhou Veterinary Research Institute, Chinese Academy of Agricultural Science, Lanzhou 730046, ChinaZhaoqing Institute of Biotechnology Co., Ltd., Zhaoqing 526000, ChinaCollege of Veterinary Medicine, South China Agricultural University, Guangzhou 510642, ChinaCollege of Veterinary Medicine, South China Agricultural University, Guangzhou 510642, ChinaCollege of Veterinary Medicine, South China Agricultural University, Guangzhou 510642, ChinaCollege of Veterinary Medicine, South China Agricultural University, Guangzhou 510642, ChinaCollege of Veterinary Medicine, South China Agricultural University, Guangzhou 510642, ChinaCollege of Veterinary Medicine, South China Agricultural University, Guangzhou 510642, ChinaCollege of Veterinary Medicine, South China Agricultural University, Guangzhou 510642, ChinaCollege of Veterinary Medicine, South China Agricultural University, Guangzhou 510642, ChinaCollege of Veterinary Medicine, South China Agricultural University, Guangzhou 510642, ChinaCollege of Veterinary Medicine, South China Agricultural University, Guangzhou 510642, ChinaRetinoic acid-inducible gene I (RIG-I) serves as an essential viral RNA sensor for innate immune. The activation of the RIG-I-like receptors (RLRs) pathway triggers many regulations for the outcome of type I interferon, including ubiquitination, dephosphorylation, ISGylation, and autophagy. However, the autophagy-related regulation of RIG-I is still not fully understood. To investigate the potentially unknown genes related to autophagy-related regulation of RIG-I, we firstly confirm the induction of autophagy derived by overexpression of RIG-I. Furthermore, the autophagy inducer and inhibitor drugs were used in different assays. The results showed autophagy could control the activation of RLRs pathway and expression of exogenous RIG-I. In addition, we carried out the transcriptome analysis of overexpression of RIG-I in vitro. Differentially expressed genes (DEGs) in GO and KEGG signaling pathways enrichment provided a newly complex network. Finally, the validation of qPCR indicated that the DEGs PTPN22, PRKN, OTUD7B, and SIRT2 were correlated to the negative regulation of excessive expression of RIG-I. Taken together, our study contributed new insights into a more comprehensive understanding of the regulation of excessive expression of RIG-I. It provided the potential candidate genes for autophagy-related negative regulation for further investigation.https://www.mdpi.com/2073-4409/11/13/2009RIG-Ioverexpressionautophagynegative regulationtranscriptome analysis |
| spellingShingle | Shaotang Ye Chen Tan Xiaoyun Yang Ji Wang Qi Li Liang Xu Zhen Wang Jianwei Mao Jingyu Wang Kui Cheng Aolei Chen Pei Zhou Shoujun Li Transcriptome Analysis of Retinoic Acid-Inducible Gene I Overexpression Reveals the Potential Genes for Autophagy-Related Negative Regulation Cells RIG-I overexpression autophagy negative regulation transcriptome analysis |
| title | Transcriptome Analysis of Retinoic Acid-Inducible Gene I Overexpression Reveals the Potential Genes for Autophagy-Related Negative Regulation |
| title_full | Transcriptome Analysis of Retinoic Acid-Inducible Gene I Overexpression Reveals the Potential Genes for Autophagy-Related Negative Regulation |
| title_fullStr | Transcriptome Analysis of Retinoic Acid-Inducible Gene I Overexpression Reveals the Potential Genes for Autophagy-Related Negative Regulation |
| title_full_unstemmed | Transcriptome Analysis of Retinoic Acid-Inducible Gene I Overexpression Reveals the Potential Genes for Autophagy-Related Negative Regulation |
| title_short | Transcriptome Analysis of Retinoic Acid-Inducible Gene I Overexpression Reveals the Potential Genes for Autophagy-Related Negative Regulation |
| title_sort | transcriptome analysis of retinoic acid inducible gene i overexpression reveals the potential genes for autophagy related negative regulation |
| topic | RIG-I overexpression autophagy negative regulation transcriptome analysis |
| url | https://www.mdpi.com/2073-4409/11/13/2009 |
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