Exploring Multi-Tissue Alternative Splicing and Skeletal Muscle Metabolism Regulation in Obese- and Lean-Type Pigs
Alternative splicing (AS) is a crucial mechanism in post-transcriptional regulation, contributing significantly to the diversity of the transcriptome and proteome. In this study, we performed a comprehensive AS profile in nine tissues obtained from Duroc (lean-type) and Luchuan (obese-type) pigs. No...
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MDPI AG
2024-01-01
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| author | Wei Wang Wangchang Li Weiwei Liu Zishuai Wang Bingkun Xie Xiaogan Yang Zhonglin Tang |
| author_facet | Wei Wang Wangchang Li Weiwei Liu Zishuai Wang Bingkun Xie Xiaogan Yang Zhonglin Tang |
| author_sort | Wei Wang |
| collection | DOAJ |
| description | Alternative splicing (AS) is a crucial mechanism in post-transcriptional regulation, contributing significantly to the diversity of the transcriptome and proteome. In this study, we performed a comprehensive AS profile in nine tissues obtained from Duroc (lean-type) and Luchuan (obese-type) pigs. Notably, 94,990 AS events from 14,393 genes were identified. Among these AS events, it was observed that 80% belonged to the skipped exon (SE) type. Functional enrichment analysis showed that genes with more than ten AS events were closely associated with tissue-specific functions. Additionally, the analysis of overlap between differentially alternative splicing genes (DSGs) and differentially expressed genes (DEGs) revealed the highest number of overlapped genes in the heart and skeletal muscle. The novelty of our study is that it identified and validated three genes (<i>PYGM</i>, <i>MAPK11</i> and <i>CAMK2B</i>) in the glucagon signaling pathway, and their alternative splicing differences were highly significant across two pig breeds. In conclusion, our study offers novel insights into the molecular regulation of diverse tissue physiologies and the phenotypic differences between obese- and lean-type pigs, which are helpful for pig breeding. |
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| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-07T22:32:04Z |
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| spelling | doaj.art-d5206f912ac94baa893bec8d01b133ae2024-02-23T15:17:48ZengMDPI AGGenes2073-44252024-01-0115219610.3390/genes15020196Exploring Multi-Tissue Alternative Splicing and Skeletal Muscle Metabolism Regulation in Obese- and Lean-Type PigsWei Wang0Wangchang Li1Weiwei Liu2Zishuai Wang3Bingkun Xie4Xiaogan Yang5Zhonglin Tang6Key Laboratory of Agricultural Animal Genetics, Breeding and Reproduction of Ministry of Education and Key Lab of Swine Genetics and Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan 430070, ChinaKunpeng Institute of Modern Agriculture at Foshan, Agricultural Genomics Institute, Chinese Academy of Agricultural Sciences, Foshan 528226, ChinaKunpeng Institute of Modern Agriculture at Foshan, Agricultural Genomics Institute, Chinese Academy of Agricultural Sciences, Foshan 528226, ChinaKunpeng Institute of Modern Agriculture at Foshan, Agricultural Genomics Institute, Chinese Academy of Agricultural Sciences, Foshan 528226, ChinaAnimal Husbandry Research Institute, Guangxi Vocational University of Agriculture, Nanning 530001, ChinaGuangxi Key Laboratory of Animal Breeding, Disease Control and Prevention, College of Animal Science & Technology, Guangxi University, Nanning 530004, ChinaKey Laboratory of Agricultural Animal Genetics, Breeding and Reproduction of Ministry of Education and Key Lab of Swine Genetics and Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan 430070, ChinaAlternative splicing (AS) is a crucial mechanism in post-transcriptional regulation, contributing significantly to the diversity of the transcriptome and proteome. In this study, we performed a comprehensive AS profile in nine tissues obtained from Duroc (lean-type) and Luchuan (obese-type) pigs. Notably, 94,990 AS events from 14,393 genes were identified. Among these AS events, it was observed that 80% belonged to the skipped exon (SE) type. Functional enrichment analysis showed that genes with more than ten AS events were closely associated with tissue-specific functions. Additionally, the analysis of overlap between differentially alternative splicing genes (DSGs) and differentially expressed genes (DEGs) revealed the highest number of overlapped genes in the heart and skeletal muscle. The novelty of our study is that it identified and validated three genes (<i>PYGM</i>, <i>MAPK11</i> and <i>CAMK2B</i>) in the glucagon signaling pathway, and their alternative splicing differences were highly significant across two pig breeds. In conclusion, our study offers novel insights into the molecular regulation of diverse tissue physiologies and the phenotypic differences between obese- and lean-type pigs, which are helpful for pig breeding.https://www.mdpi.com/2073-4425/15/2/196obese- and lean-type pigsmultiple tissuestranscriptomealternative splicingskeletal muscle metabolism |
| spellingShingle | Wei Wang Wangchang Li Weiwei Liu Zishuai Wang Bingkun Xie Xiaogan Yang Zhonglin Tang Exploring Multi-Tissue Alternative Splicing and Skeletal Muscle Metabolism Regulation in Obese- and Lean-Type Pigs Genes obese- and lean-type pigs multiple tissues transcriptome alternative splicing skeletal muscle metabolism |
| title | Exploring Multi-Tissue Alternative Splicing and Skeletal Muscle Metabolism Regulation in Obese- and Lean-Type Pigs |
| title_full | Exploring Multi-Tissue Alternative Splicing and Skeletal Muscle Metabolism Regulation in Obese- and Lean-Type Pigs |
| title_fullStr | Exploring Multi-Tissue Alternative Splicing and Skeletal Muscle Metabolism Regulation in Obese- and Lean-Type Pigs |
| title_full_unstemmed | Exploring Multi-Tissue Alternative Splicing and Skeletal Muscle Metabolism Regulation in Obese- and Lean-Type Pigs |
| title_short | Exploring Multi-Tissue Alternative Splicing and Skeletal Muscle Metabolism Regulation in Obese- and Lean-Type Pigs |
| title_sort | exploring multi tissue alternative splicing and skeletal muscle metabolism regulation in obese and lean type pigs |
| topic | obese- and lean-type pigs multiple tissues transcriptome alternative splicing skeletal muscle metabolism |
| url | https://www.mdpi.com/2073-4425/15/2/196 |
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