{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,10]],"date-time":"2025-10-10T01:15:11Z","timestamp":1760058911934,"version":"build-2065373602"},"reference-count":62,"publisher":"MDPI AG","issue":"9","license":[{"start":{"date-parts":[[2025,5,7]],"date-time":"2025-05-07T00:00:00Z","timestamp":1746576000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Sichuan Science and Technology Program","award":["2020YFN0024","2021ZDZX0008","2021YFYZ0030","sccxtd-2022-08","No. CARS-35-01A"],"award-info":[{"award-number":["2020YFN0024","2021ZDZX0008","2021YFYZ0030","sccxtd-2022-08","No. CARS-35-01A"]}]},{"name":"Sichuan Innovation Team of Pig","award":["2020YFN0024","2021ZDZX0008","2021YFYZ0030","sccxtd-2022-08","No. CARS-35-01A"],"award-info":[{"award-number":["2020YFN0024","2021ZDZX0008","2021YFYZ0030","sccxtd-2022-08","No. CARS-35-01A"]}]},{"name":"Earmarked Fund for the China Agriculture Research System","award":["2020YFN0024","2021ZDZX0008","2021YFYZ0030","sccxtd-2022-08","No. CARS-35-01A"],"award-info":[{"award-number":["2020YFN0024","2021ZDZX0008","2021YFYZ0030","sccxtd-2022-08","No. CARS-35-01A"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Animals"],"abstract":"<jats:p>Social genetic effects (SGEs) refer to how the genotypes of other individuals impact an individual\u2019s phenotype within a population. These effects significantly influence the feeding behavior and production performance in pigs, though their mechanisms are not well understood. This study examined two pig groups with extreme SGE values for residual feed intake (RFI), analyzing their feeding behavior and the molecular mechanisms involved using transcriptomics and proteomics analysis of liver and ileum tissues. Pigs with higher SGE values exhibited distinct feeding patterns, spending more time at the feeder but making fewer visits. They consumed less overall feed but had a higher intake per visit. Differentially expressed genes and proteins were identified in the liver and ileum and were associated with processes such as mitochondrial functions, oxidative phosphorylation, and cholesterol metabolism. Integrated analysis supported these findings. Combined transcriptome and proteome analysis identified potential key genes that were associated with processes including mitochondrial processes, oxidative phosphorylation, fat digestion and absorption, and cholesterol metabolism. The results showed that pigs with differing SGE values display different feeding behaviors and utilize distinct molecular pathways affecting RFI. These findings offer valuable insights into how SGEs influence feed efficiency and shed light on the fundamental mechanisms underlying it.<\/jats:p>","DOI":"10.3390\/ani15091345","type":"journal-article","created":{"date-parts":[[2025,5,7]],"date-time":"2025-05-07T08:20:53Z","timestamp":1746606053000},"page":"1345","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Transcriptomic and Proteomic Analyses of the Liver and Ileum Identify Key Genes and Pathways Associated with Low and High Groups of Social Genetic Effect of Residual Feed Intake"],"prefix":"10.3390","volume":"15","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-0987-3118","authenticated-orcid":false,"given":"Patrick Kofi Makafui","family":"Tecku","sequence":"first","affiliation":[{"name":"Key Laboratory of Livestock and Poultry Multi-Omics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China"},{"name":"Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zhenjian","family":"Zhao","sequence":"additional","affiliation":[{"name":"Key Laboratory of Livestock and Poultry Multi-Omics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China"},{"name":"Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kai","family":"Wang","sequence":"additional","affiliation":[{"name":"Key Laboratory of Livestock and Poultry Multi-Omics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China"},{"name":"Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China"},{"name":"Key Laboratory of Digital Intelligent Breeding Technology Innovation for Swine and Poultry, Ministry of Agriculture and Rural Affairs, New Hope Liuhe Co., Ltd., Chengdu 610023, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xiang","family":"Ji","sequence":"additional","affiliation":[{"name":"Key Laboratory of Livestock and Poultry Multi-Omics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China"},{"name":"Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dong","family":"Chen","sequence":"additional","affiliation":[{"name":"Key Laboratory of Livestock and Poultry Multi-Omics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China"},{"name":"Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Qi","family":"Shen","sequence":"additional","affiliation":[{"name":"Key Laboratory of Livestock and Poultry Multi-Omics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China"},{"name":"Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yang","family":"Yu","sequence":"additional","affiliation":[{"name":"Key Laboratory of Livestock and Poultry Multi-Omics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China"},{"name":"Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Shengdi","family":"Cui","sequence":"additional","affiliation":[{"name":"Key Laboratory of Livestock and Poultry Multi-Omics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China"},{"name":"Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0009-0001-3653-5424","authenticated-orcid":false,"given":"Junge","family":"Wang","sequence":"additional","affiliation":[{"name":"Key Laboratory of Livestock and Poultry Multi-Omics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China"},{"name":"Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ziyang","family":"Chen","sequence":"additional","affiliation":[{"name":"Key Laboratory of Livestock and Poultry Multi-Omics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China"},{"name":"Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jia","family":"Xue","sequence":"additional","affiliation":[{"name":"Chengdu Animal Disease Prevention and Control Center, Chengdu 610041, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Guoqing","family":"Tang","sequence":"additional","affiliation":[{"name":"Key Laboratory of Livestock and Poultry Multi-Omics, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China"},{"name":"Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, 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