Weighted gene co-expression network analysis identified hub genes critical to fatty acid composition in Gushi chicken breast muscle
Abstract Background The composition and content of fatty acids in the breast muscle are important factors influencing meat quality. In this study, we investigated the fatty acid composition and content in the breast muscle of Gushi chickens at different developmental stages (14 weeks, 22 weeks, and...
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| Format: | Article |
| Language: | English |
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BMC
2023-10-01
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| Series: | BMC Genomics |
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| Online Access: | https://doi.org/10.1186/s12864-023-09685-8 |
| _version_ | 1797453723381792768 |
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| author | Bin Zhai Yinli Zhao Hongtai Li Shuaihao Li Jinxing Gu Hongyuan Zhang Yanhua Zhang Hong Li Yadong Tian Guoxi Li Yongcai Wang |
| author_facet | Bin Zhai Yinli Zhao Hongtai Li Shuaihao Li Jinxing Gu Hongyuan Zhang Yanhua Zhang Hong Li Yadong Tian Guoxi Li Yongcai Wang |
| author_sort | Bin Zhai |
| collection | DOAJ |
| description | Abstract Background The composition and content of fatty acids in the breast muscle are important factors influencing meat quality. In this study, we investigated the fatty acid composition and content in the breast muscle of Gushi chickens at different developmental stages (14 weeks, 22 weeks, and 30 weeks). Additionally, we utilized transcriptomic data from the same tissue and employed WGCNA and module identification methods to identify key genes associated with the fatty acid composition in Gushi chicken breast muscle and elucidate their regulatory networks. Results Among them, six modules (blue, brown, green, light yellow, purple, and red modules) showed significant correlations with fatty acid content and metabolic characteristics. Enrichment analysis revealed that these modules were involved in multiple signaling pathways related to fatty acid metabolism, including fatty acid metabolism, PPAR signaling pathway, and fatty acid biosynthesis. Through analysis of key genes, we identified 136 genes significantly associated with fatty acid phenotypic traits. Protein–protein interaction network analysis revealed that nine of these genes were closely related to fatty acid metabolism. Additionally, through correlation analysis of transcriptome data, we identified 51 key ceRNA regulatory networks, including six central genes, 7 miRNAs, and 28 lncRNAs. Conclusion This study successfully identified key genes closely associated with the fatty acid composition in Gushi chicken breast muscle, as well as their post-transcriptional regulatory networks. These findings provide new insights into the molecular regulatory mechanisms underlying the flavor characteristics of chicken meat and the composition of fatty acids in the breast muscle. |
| first_indexed | 2024-03-09T15:26:58Z |
| format | Article |
| id | doaj.art-151e8d690a694397a81e90c2681d0f09 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-03-09T15:26:58Z |
| publishDate | 2023-10-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-151e8d690a694397a81e90c2681d0f092023-11-26T12:26:09ZengBMCBMC Genomics1471-21642023-10-0124111110.1186/s12864-023-09685-8Weighted gene co-expression network analysis identified hub genes critical to fatty acid composition in Gushi chicken breast muscleBin Zhai0Yinli Zhao1Hongtai Li2Shuaihao Li3Jinxing Gu4Hongyuan Zhang5Yanhua Zhang6Hong Li7Yadong Tian8Guoxi Li9Yongcai Wang10College of Animal Science and Technology, Henan Agricultural UniversityCollege of Biological Engineering, Henan University of TechnologyCollege of Animal Science and Technology, Henan Agricultural UniversityCollege of Animal Science and Technology, Henan Agricultural UniversityCollege of Animal Science and Technology, Henan Agricultural UniversityCollege of Animal Science and Technology, Henan Agricultural UniversityCollege of Animal Science and Technology, Henan Agricultural UniversityCollege of Animal Science and Technology, Henan Agricultural UniversityCollege of Animal Science and Technology, Henan Agricultural UniversityCollege of Animal Science and Technology, Henan Agricultural UniversityCollege of Animal Science and Technology, Henan Agricultural UniversityAbstract Background The composition and content of fatty acids in the breast muscle are important factors influencing meat quality. In this study, we investigated the fatty acid composition and content in the breast muscle of Gushi chickens at different developmental stages (14 weeks, 22 weeks, and 30 weeks). Additionally, we utilized transcriptomic data from the same tissue and employed WGCNA and module identification methods to identify key genes associated with the fatty acid composition in Gushi chicken breast muscle and elucidate their regulatory networks. Results Among them, six modules (blue, brown, green, light yellow, purple, and red modules) showed significant correlations with fatty acid content and metabolic characteristics. Enrichment analysis revealed that these modules were involved in multiple signaling pathways related to fatty acid metabolism, including fatty acid metabolism, PPAR signaling pathway, and fatty acid biosynthesis. Through analysis of key genes, we identified 136 genes significantly associated with fatty acid phenotypic traits. Protein–protein interaction network analysis revealed that nine of these genes were closely related to fatty acid metabolism. Additionally, through correlation analysis of transcriptome data, we identified 51 key ceRNA regulatory networks, including six central genes, 7 miRNAs, and 28 lncRNAs. Conclusion This study successfully identified key genes closely associated with the fatty acid composition in Gushi chicken breast muscle, as well as their post-transcriptional regulatory networks. These findings provide new insights into the molecular regulatory mechanisms underlying the flavor characteristics of chicken meat and the composition of fatty acids in the breast muscle.https://doi.org/10.1186/s12864-023-09685-8ChickenBreast musclesFatty acid compositionWGCNAHub gene |
| spellingShingle | Bin Zhai Yinli Zhao Hongtai Li Shuaihao Li Jinxing Gu Hongyuan Zhang Yanhua Zhang Hong Li Yadong Tian Guoxi Li Yongcai Wang Weighted gene co-expression network analysis identified hub genes critical to fatty acid composition in Gushi chicken breast muscle BMC Genomics Chicken Breast muscles Fatty acid composition WGCNA Hub gene |
| title | Weighted gene co-expression network analysis identified hub genes critical to fatty acid composition in Gushi chicken breast muscle |
| title_full | Weighted gene co-expression network analysis identified hub genes critical to fatty acid composition in Gushi chicken breast muscle |
| title_fullStr | Weighted gene co-expression network analysis identified hub genes critical to fatty acid composition in Gushi chicken breast muscle |
| title_full_unstemmed | Weighted gene co-expression network analysis identified hub genes critical to fatty acid composition in Gushi chicken breast muscle |
| title_short | Weighted gene co-expression network analysis identified hub genes critical to fatty acid composition in Gushi chicken breast muscle |
| title_sort | weighted gene co expression network analysis identified hub genes critical to fatty acid composition in gushi chicken breast muscle |
| topic | Chicken Breast muscles Fatty acid composition WGCNA Hub gene |
| url | https://doi.org/10.1186/s12864-023-09685-8 |
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