Research Note: Integrated transcriptomic and metabolomic analysis reveals potential candidate genes and regulatory pathways associated with egg weight in ducks
ABSTRACT: Egg weight is an important indicator of egg phenotypic traits, which directly affects the economic benefits of the poultry industry. In the present research, laying ducks were classified into high egg weight (HEW) and light egg weight (LEW) groups. To reveal the underlying mechanism that m...
| Main Authors: | , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2023-02-01
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| Series: | Poultry Science |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S0032579122006356 |
| _version_ | 1811175488621641728 |
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| author | Xiping Yan Jiwei Hu Jingjing Qi Qian Tang Junpeng Li Lili Bai Bincheng Tang Qingyuan Ouyang Tianhao Wu Hua He Liang Li Hengyong Xu Jiweng Wang Xingfa Han Xianyin Zeng Hehe Liu |
| author_facet | Xiping Yan Jiwei Hu Jingjing Qi Qian Tang Junpeng Li Lili Bai Bincheng Tang Qingyuan Ouyang Tianhao Wu Hua He Liang Li Hengyong Xu Jiweng Wang Xingfa Han Xianyin Zeng Hehe Liu |
| author_sort | Xiping Yan |
| collection | DOAJ |
| description | ABSTRACT: Egg weight is an important indicator of egg phenotypic traits, which directly affects the economic benefits of the poultry industry. In the present research, laying ducks were classified into high egg weight (HEW) and light egg weight (LEW) groups. To reveal the underlying mechanism that may be responsible for the egg weight difference, the integrated analysis of transcriptomes and serum metabolomics was performed between the two groups. The results showed extremely significant differences (P < 0.01) in the total egg weight at 300 d, and average egg weight between the HEW and LEW groups. 733, 591, 82, and 74 differentially expressed genes (DEGs) were identified in the liver, magnum, F1, and F5 (hierarchical follicles) follicle membrane, respectively. The candidate genes were screened further from the perspective of forming an egg. In terms of egg yolk formation, the functional analysis revealed fatty acid metabolism-related pathways account for 36% of the liver's top pathways, including fatty acid biosynthesis, folate biosynthesis, fatty acid metabolism, and glycerol lipid metabolism pathways. FASN gene was identified as the key candidate gene by comprehensive analysis of gene expression and protein-protein interaction (PPI) network. In the follicle membrane, the DEGs were mainly enriched in protein processing in the endoplasmic reticulum, and MAPK signaling pathway, and HSPA2, HSPA8, BAG3 genes were identified as crucial candidate genes. In terms of egg white formation, the functional analysis revealed protein metabolism-related pathways account for 40% of the magnum's top pathways, which includes protein processing in the endoplasmic reticulum pathway. HSP90AA1 and HSPA8 genes were identified as key candidate genes. In addition, the integrated transcriptomic and metabolomic analysis showed that arginine and proline metabolism pathways could contribute to differences in egg weight. Thus, we speculated that the potential candidate genes, regulatory pathways, and metabolic biomarkers mentioned above might be responsible for the egg weight difference. These findings might provide a theoretical basis for improving the egg weight of ducks. |
| first_indexed | 2024-04-10T19:37:51Z |
| format | Article |
| id | doaj.art-9741f3bff938424a819edb7ecb11d526 |
| institution | Directory Open Access Journal |
| issn | 0032-5791 |
| language | English |
| last_indexed | 2024-04-10T19:37:51Z |
| publishDate | 2023-02-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Poultry Science |
| spelling | doaj.art-9741f3bff938424a819edb7ecb11d5262023-01-30T04:11:20ZengElsevierPoultry Science0032-57912023-02-011022102341Research Note: Integrated transcriptomic and metabolomic analysis reveals potential candidate genes and regulatory pathways associated with egg weight in ducksXiping Yan0Jiwei Hu1Jingjing Qi2Qian Tang3Junpeng Li4Lili Bai5Bincheng Tang6Qingyuan Ouyang7Tianhao Wu8Hua He9Liang Li10Hengyong Xu11Jiweng Wang12Xingfa Han13Xianyin Zeng14Hehe Liu15A Department of Engineering and Applied Biology, College of Life Science, Sichuan Agricultural University, Ya'an, Sichuan, 625014, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, ChinaA Department of Engineering and Applied Biology, College of Life Science, Sichuan Agricultural University, Ya'an, Sichuan, 625014, ChinaA Department of Engineering and Applied Biology, College of Life Science, Sichuan Agricultural University, Ya'an, Sichuan, 625014, ChinaFarm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Chengdu Campus, Sichuan Agricultural University, Wenjiang District, Chengdu, Sichuan, 611130, China; Corresponding author:ABSTRACT: Egg weight is an important indicator of egg phenotypic traits, which directly affects the economic benefits of the poultry industry. In the present research, laying ducks were classified into high egg weight (HEW) and light egg weight (LEW) groups. To reveal the underlying mechanism that may be responsible for the egg weight difference, the integrated analysis of transcriptomes and serum metabolomics was performed between the two groups. The results showed extremely significant differences (P < 0.01) in the total egg weight at 300 d, and average egg weight between the HEW and LEW groups. 733, 591, 82, and 74 differentially expressed genes (DEGs) were identified in the liver, magnum, F1, and F5 (hierarchical follicles) follicle membrane, respectively. The candidate genes were screened further from the perspective of forming an egg. In terms of egg yolk formation, the functional analysis revealed fatty acid metabolism-related pathways account for 36% of the liver's top pathways, including fatty acid biosynthesis, folate biosynthesis, fatty acid metabolism, and glycerol lipid metabolism pathways. FASN gene was identified as the key candidate gene by comprehensive analysis of gene expression and protein-protein interaction (PPI) network. In the follicle membrane, the DEGs were mainly enriched in protein processing in the endoplasmic reticulum, and MAPK signaling pathway, and HSPA2, HSPA8, BAG3 genes were identified as crucial candidate genes. In terms of egg white formation, the functional analysis revealed protein metabolism-related pathways account for 40% of the magnum's top pathways, which includes protein processing in the endoplasmic reticulum pathway. HSP90AA1 and HSPA8 genes were identified as key candidate genes. In addition, the integrated transcriptomic and metabolomic analysis showed that arginine and proline metabolism pathways could contribute to differences in egg weight. Thus, we speculated that the potential candidate genes, regulatory pathways, and metabolic biomarkers mentioned above might be responsible for the egg weight difference. These findings might provide a theoretical basis for improving the egg weight of ducks.http://www.sciencedirect.com/science/article/pii/S0032579122006356ducksegg weightcandidate genesregulatory pathwaysmetabolic biomarkers |
| spellingShingle | Xiping Yan Jiwei Hu Jingjing Qi Qian Tang Junpeng Li Lili Bai Bincheng Tang Qingyuan Ouyang Tianhao Wu Hua He Liang Li Hengyong Xu Jiweng Wang Xingfa Han Xianyin Zeng Hehe Liu Research Note: Integrated transcriptomic and metabolomic analysis reveals potential candidate genes and regulatory pathways associated with egg weight in ducks Poultry Science ducks egg weight candidate genes regulatory pathways metabolic biomarkers |
| title | Research Note: Integrated transcriptomic and metabolomic analysis reveals potential candidate genes and regulatory pathways associated with egg weight in ducks |
| title_full | Research Note: Integrated transcriptomic and metabolomic analysis reveals potential candidate genes and regulatory pathways associated with egg weight in ducks |
| title_fullStr | Research Note: Integrated transcriptomic and metabolomic analysis reveals potential candidate genes and regulatory pathways associated with egg weight in ducks |
| title_full_unstemmed | Research Note: Integrated transcriptomic and metabolomic analysis reveals potential candidate genes and regulatory pathways associated with egg weight in ducks |
| title_short | Research Note: Integrated transcriptomic and metabolomic analysis reveals potential candidate genes and regulatory pathways associated with egg weight in ducks |
| title_sort | research note integrated transcriptomic and metabolomic analysis reveals potential candidate genes and regulatory pathways associated with egg weight in ducks |
| topic | ducks egg weight candidate genes regulatory pathways metabolic biomarkers |
| url | http://www.sciencedirect.com/science/article/pii/S0032579122006356 |
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