Explorations on Key Module and Hub Genes Affecting IMP Content of Chicken Pectoralis Major Muscle Based on WGCNA
Inosine monophosphate (IMP) is a substance that enhances flavor and plays a crucial role in the umami taste of chicken muscle. It is also an influential factor in determining chicken’s economic value. However, the molecular regulatory network underlying the IMP content in muscle remains unclear. To...
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| Format: | Article |
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MDPI AG
2024-01-01
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| Series: | Animals |
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| Online Access: | https://www.mdpi.com/2076-2615/14/3/402 |
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| author | Xinxin He Jinmei Xu Yanan Liu Xing Guo Wei Wei Chaohui Xing Hong Zhang Hao Wang Meng Liu Runshen Jiang |
| author_facet | Xinxin He Jinmei Xu Yanan Liu Xing Guo Wei Wei Chaohui Xing Hong Zhang Hao Wang Meng Liu Runshen Jiang |
| author_sort | Xinxin He |
| collection | DOAJ |
| description | Inosine monophosphate (IMP) is a substance that enhances flavor and plays a crucial role in the umami taste of chicken muscle. It is also an influential factor in determining chicken’s economic value. However, the molecular regulatory network underlying the IMP content in muscle remains unclear. To address this issue, we performed transcriptome sequencing on 20 pectoralis major muscle samples from 120-day-old Guangde feathered-leg chicken and used weighted gene co-expression network analysis (WGCNA) to identify key regulatory factors that influence IMP content. The weighted gene co-expression network was constructed using a total of 16,344 genes, leading to the identification of 20 co-expression gene modules. Among the modules that were identified, it was observed that the purple module (R = −0.51, <i>p</i> = 0.02) showed a significant negative correlation with the IMP content. This suggests that the genes within the purple module had the ability to regulate the IMP content. A total of 68 hub genes were identified in the purple module through gene significance (GS) > 0.2 and module membership (MM) > 0.8. The STRING database was used for a protein–protein interaction (PPI) network of hub genes. Furthermore, troponin I type 1 (<i>TNNI1</i>), myozenin 2 (<i>MYOZ2</i>), myosin light chain 2 regulatory cardiac slow (<i>MYL2</i>), and myosin light chain 3 regulatory cardiac slow (<i>MYL3</i>) involved in the “ATP-dependent activity”, “cAMP signaling pathway” and “cGMP-PKG signaling pathway” were identified as central regulators that contribute to IMP content. These results offer valuable information into the gene expression and regulation that affects IMP content in muscle. |
| first_indexed | 2024-03-08T04:01:36Z |
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| language | English |
| last_indexed | 2024-03-08T04:01:36Z |
| publishDate | 2024-01-01 |
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| series | Animals |
| spelling | doaj.art-64e2079d40fc4a4aae15312a6bd5a10f2024-02-09T15:06:30ZengMDPI AGAnimals2076-26152024-01-0114340210.3390/ani14030402Explorations on Key Module and Hub Genes Affecting IMP Content of Chicken Pectoralis Major Muscle Based on WGCNAXinxin He0Jinmei Xu1Yanan Liu2Xing Guo3Wei Wei4Chaohui Xing5Hong Zhang6Hao Wang7Meng Liu8Runshen Jiang9College of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, ChinaCollege of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, ChinaCollege of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, ChinaCollege of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, ChinaCollege of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, ChinaCollege of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, ChinaCollege of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, ChinaCollege of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, ChinaCollege of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, ChinaCollege of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, ChinaInosine monophosphate (IMP) is a substance that enhances flavor and plays a crucial role in the umami taste of chicken muscle. It is also an influential factor in determining chicken’s economic value. However, the molecular regulatory network underlying the IMP content in muscle remains unclear. To address this issue, we performed transcriptome sequencing on 20 pectoralis major muscle samples from 120-day-old Guangde feathered-leg chicken and used weighted gene co-expression network analysis (WGCNA) to identify key regulatory factors that influence IMP content. The weighted gene co-expression network was constructed using a total of 16,344 genes, leading to the identification of 20 co-expression gene modules. Among the modules that were identified, it was observed that the purple module (R = −0.51, <i>p</i> = 0.02) showed a significant negative correlation with the IMP content. This suggests that the genes within the purple module had the ability to regulate the IMP content. A total of 68 hub genes were identified in the purple module through gene significance (GS) > 0.2 and module membership (MM) > 0.8. The STRING database was used for a protein–protein interaction (PPI) network of hub genes. Furthermore, troponin I type 1 (<i>TNNI1</i>), myozenin 2 (<i>MYOZ2</i>), myosin light chain 2 regulatory cardiac slow (<i>MYL2</i>), and myosin light chain 3 regulatory cardiac slow (<i>MYL3</i>) involved in the “ATP-dependent activity”, “cAMP signaling pathway” and “cGMP-PKG signaling pathway” were identified as central regulators that contribute to IMP content. These results offer valuable information into the gene expression and regulation that affects IMP content in muscle.https://www.mdpi.com/2076-2615/14/3/402chickenWGCNAIMP contenthub genes |
| spellingShingle | Xinxin He Jinmei Xu Yanan Liu Xing Guo Wei Wei Chaohui Xing Hong Zhang Hao Wang Meng Liu Runshen Jiang Explorations on Key Module and Hub Genes Affecting IMP Content of Chicken Pectoralis Major Muscle Based on WGCNA Animals chicken WGCNA IMP content hub genes |
| title | Explorations on Key Module and Hub Genes Affecting IMP Content of Chicken Pectoralis Major Muscle Based on WGCNA |
| title_full | Explorations on Key Module and Hub Genes Affecting IMP Content of Chicken Pectoralis Major Muscle Based on WGCNA |
| title_fullStr | Explorations on Key Module and Hub Genes Affecting IMP Content of Chicken Pectoralis Major Muscle Based on WGCNA |
| title_full_unstemmed | Explorations on Key Module and Hub Genes Affecting IMP Content of Chicken Pectoralis Major Muscle Based on WGCNA |
| title_short | Explorations on Key Module and Hub Genes Affecting IMP Content of Chicken Pectoralis Major Muscle Based on WGCNA |
| title_sort | explorations on key module and hub genes affecting imp content of chicken pectoralis major muscle based on wgcna |
| topic | chicken WGCNA IMP content hub genes |
| url | https://www.mdpi.com/2076-2615/14/3/402 |
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