Identification of central regulators related to abdominal fat deposition in chickens based on weighted gene co-expression network analysis
ABSTRACT: Abdominal fat (AF) is one of the most important economic traits in chickens. Excessive AF in chickens will reduce feed utilization efficiency and negatively affect reproductive performance and disease resistance. However, the regulatory network of AF deposition needs to be further elucidat...
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| Format: | Article |
| Language: | English |
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Elsevier
2024-03-01
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| Series: | Poultry Science |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S0032579124000154 |
| _version_ | 1827338896401235968 |
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| author | Wei Wei Jiaxu Xiao Najun Huang Chaohui Xing Jiangxian Wang Xinxin He Jinmei Xu Hao Wang Xing Guo Runshen Jiang |
| author_facet | Wei Wei Jiaxu Xiao Najun Huang Chaohui Xing Jiangxian Wang Xinxin He Jinmei Xu Hao Wang Xing Guo Runshen Jiang |
| author_sort | Wei Wei |
| collection | DOAJ |
| description | ABSTRACT: Abdominal fat (AF) is one of the most important economic traits in chickens. Excessive AF in chickens will reduce feed utilization efficiency and negatively affect reproductive performance and disease resistance. However, the regulatory network of AF deposition needs to be further elucidated. In the present study, 300 one-day-old female Wannan chickens were reared to 17 wk of age, and 200 Wannan hens were selected to determine the abdominal fat percentage (AFP). Twenty AF tissue samples with the lowest AFP were selected as the low abdominal fat group (L-AFG), and 20 AF tissue samples with the highest AFP were selected as the high abdominal fat group (H-AFG). Eleven samples from L-AFG and 14 samples from H-AFG were selected for RNA-seq and used for weighted gene co-expression network analysis (WGCNA). Among the 25 RNA-seq samples, 5 samples with the lowest and highest AFP values were selected for differential expression gene analysis. Compared with the L-AFG, 225 and 101 genes were upregulated and downregulated in the H-AFG, respectively. A total of 20,503 genes were used to construct the WGCNA, and 44 co-expression gene modules were identified. Among these modules, 3 modules including turquoise, darkorange2, and floralwhite were identified as significantly associated with AFP traits. Furthermore, several genes including acyl-CoA oxidase 1 (ACOX1), stearoyl-CoA desaturase (SCD), aldehyde dehydrogenase 6 family member A1 (ALDH6A1), jun proto-oncogene, AP-1 transcription factor subunit (JUN), and fos proto-oncogene, AP-1 transcription factor subunit (FOS) involved in the “PPAR signaling pathway,” “fatty acid metabolism,” and “MAPK signaling pathway” were identified as central regulators that contribute to AF deposition. These results provide valuable information for further understanding of the gene expression and regulation of AF traits and contribute to future molecular breeding for AF in chickens. |
| first_indexed | 2024-03-07T19:43:09Z |
| format | Article |
| id | doaj.art-17b3532c1be748bb8a0ef019517f7724 |
| institution | Directory Open Access Journal |
| issn | 0032-5791 |
| language | English |
| last_indexed | 2024-03-07T19:43:09Z |
| publishDate | 2024-03-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Poultry Science |
| spelling | doaj.art-17b3532c1be748bb8a0ef019517f77242024-02-29T05:17:22ZengElsevierPoultry Science0032-57912024-03-011033103436Identification of central regulators related to abdominal fat deposition in chickens based on weighted gene co-expression network analysisWei Wei0Jiaxu Xiao1Najun Huang2Chaohui Xing3Jiangxian Wang4Xinxin He5Jinmei Xu6Hao Wang7Xing Guo8Runshen 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, ChinaCorresponding author:; College of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, ChinaABSTRACT: Abdominal fat (AF) is one of the most important economic traits in chickens. Excessive AF in chickens will reduce feed utilization efficiency and negatively affect reproductive performance and disease resistance. However, the regulatory network of AF deposition needs to be further elucidated. In the present study, 300 one-day-old female Wannan chickens were reared to 17 wk of age, and 200 Wannan hens were selected to determine the abdominal fat percentage (AFP). Twenty AF tissue samples with the lowest AFP were selected as the low abdominal fat group (L-AFG), and 20 AF tissue samples with the highest AFP were selected as the high abdominal fat group (H-AFG). Eleven samples from L-AFG and 14 samples from H-AFG were selected for RNA-seq and used for weighted gene co-expression network analysis (WGCNA). Among the 25 RNA-seq samples, 5 samples with the lowest and highest AFP values were selected for differential expression gene analysis. Compared with the L-AFG, 225 and 101 genes were upregulated and downregulated in the H-AFG, respectively. A total of 20,503 genes were used to construct the WGCNA, and 44 co-expression gene modules were identified. Among these modules, 3 modules including turquoise, darkorange2, and floralwhite were identified as significantly associated with AFP traits. Furthermore, several genes including acyl-CoA oxidase 1 (ACOX1), stearoyl-CoA desaturase (SCD), aldehyde dehydrogenase 6 family member A1 (ALDH6A1), jun proto-oncogene, AP-1 transcription factor subunit (JUN), and fos proto-oncogene, AP-1 transcription factor subunit (FOS) involved in the “PPAR signaling pathway,” “fatty acid metabolism,” and “MAPK signaling pathway” were identified as central regulators that contribute to AF deposition. These results provide valuable information for further understanding of the gene expression and regulation of AF traits and contribute to future molecular breeding for AF in chickens.http://www.sciencedirect.com/science/article/pii/S0032579124000154chickenabdominal fatweighted gene co-expression network analysiscentral regulator |
| spellingShingle | Wei Wei Jiaxu Xiao Najun Huang Chaohui Xing Jiangxian Wang Xinxin He Jinmei Xu Hao Wang Xing Guo Runshen Jiang Identification of central regulators related to abdominal fat deposition in chickens based on weighted gene co-expression network analysis Poultry Science chicken abdominal fat weighted gene co-expression network analysis central regulator |
| title | Identification of central regulators related to abdominal fat deposition in chickens based on weighted gene co-expression network analysis |
| title_full | Identification of central regulators related to abdominal fat deposition in chickens based on weighted gene co-expression network analysis |
| title_fullStr | Identification of central regulators related to abdominal fat deposition in chickens based on weighted gene co-expression network analysis |
| title_full_unstemmed | Identification of central regulators related to abdominal fat deposition in chickens based on weighted gene co-expression network analysis |
| title_short | Identification of central regulators related to abdominal fat deposition in chickens based on weighted gene co-expression network analysis |
| title_sort | identification of central regulators related to abdominal fat deposition in chickens based on weighted gene co expression network analysis |
| topic | chicken abdominal fat weighted gene co-expression network analysis central regulator |
| url | http://www.sciencedirect.com/science/article/pii/S0032579124000154 |
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