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Exploration of Alternative Splicing (AS) Events in MDV-Infected Chicken Spleens

1
Department of Animal Genetics and Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
2
Division of Avian Infectious Diseases, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150001, China
*
Author to whom correspondence should be addressed.
Academic Editor: Jae Yong Han
Genes 2021, 12(12), 1857; https://doi.org/10.3390/genes12121857
Received: 25 October 2021 / Revised: 18 November 2021 / Accepted: 19 November 2021 / Published: 23 November 2021
(This article belongs to the Section Epigenomics)
Marek’s disease (MD) was an immunosuppression disease induced by Marek’s disease virus (MDV). MD caused huge economic loss to the global poultry industry, but it also provided an ideal model for studying diseases induced by the oncogenic virus. Alternative splicing (AS) simultaneously produced different isoform transcripts, which are involved in various diseases and individual development. To investigate AS events in MD, RNA-Seq was performed in tumorous spleens (TS), spleens from the survivors (SS) without any lesion after MDV infection, and non-infected chicken spleens (NS). In this study, 32,703 and 25,217 AS events were identified in TS and SS groups with NS group as the control group, and 1198, 1204, and 348 differently expressed (DE) AS events (p-value < 0.05 and FDR < 0.05) were identified in TS vs. NS, TS vs. SS, SS vs. NS, respectively. Additionally, Function enrichment analysis showed that ubiquitin-mediated proteolysis, p53 signaling pathway, and phosphatidylinositol signaling system were significantly enriched (p-value < 0.05). Small structural variations including SNP and indel were analyzed based on RNA-Seq data, and it showed that the TS group possessed more variants on the splice site region than those in SS and NS groups, which might cause more AS events in the TS group. Combined with previous circRNA data, we found that 287 genes could produce both circular and linear RNAs, which suggested these genes were more active in MD lymphoma transformation. This study has expanded the understanding of the MDV infection process and provided new insights for further analysis of resistance/susceptibility mechanisms. View Full-Text
Keywords: marek’s disease; alternative splice; RNA-Seq; regulatory network marek’s disease; alternative splice; RNA-Seq; regulatory network
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MDPI and ACS Style

Wang, L.; Zheng, G.; Yuan, Y.; Wang, Z.; Liu, C.; Zhang, H.; Lian, L. Exploration of Alternative Splicing (AS) Events in MDV-Infected Chicken Spleens. Genes 2021, 12, 1857. https://doi.org/10.3390/genes12121857

AMA Style

Wang L, Zheng G, Yuan Y, Wang Z, Liu C, Zhang H, Lian L. Exploration of Alternative Splicing (AS) Events in MDV-Infected Chicken Spleens. Genes. 2021; 12(12):1857. https://doi.org/10.3390/genes12121857

Chicago/Turabian Style

Wang, Lulu, Gang Zheng, Yiming Yuan, Ziyi Wang, Changjun Liu, Hao Zhang, and Ling Lian. 2021. "Exploration of Alternative Splicing (AS) Events in MDV-Infected Chicken Spleens" Genes 12, no. 12: 1857. https://doi.org/10.3390/genes12121857

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