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Identification of hub genes in digestive system of mandarin fish (Siniperca chuatsi) fed with artificial diet by weighted gene co-expression network analysis.
Shen, Yawei; Song, Lingyuan; Chen, Tiantian; Jiang, Hewei; Yang, Guokun; Zhang, Yanmin; Zhang, Xindang; Lim, Kah Kheng; Meng, Xiaolin; Zhao, Jinliang; Chen, Xiaowu.
Afiliación
  • Shen Y; College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China; Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, Shanghai Ocean University, Shanghai 201306, China; CCMAR/CIMAR Centre of Marine Sciences, University of Algarve, Campus de
  • Song L; Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, Shanghai Ocean University, Shanghai 201306, China.
  • Chen T; Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, Shanghai Ocean University, Shanghai 201306, China.
  • Jiang H; Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, Shanghai Ocean University, Shanghai 201306, China.
  • Yang G; College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China.
  • Zhang Y; College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China.
  • Zhang X; College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China.
  • Lim KK; Red Sea Research Center, Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia.
  • Meng X; College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China.
  • Zhao J; Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, Shanghai Ocean University, Shanghai 201306, China. Electronic address: jlzhao@shou.edu.cn.
  • Chen X; Shanghai Collaborative Innovation for Aquatic Animal Genetics and Breeding, Shanghai Ocean University, Shanghai 201306, China. Electronic address: xwchen@shou.edu.cn.
Article en En | MEDLINE | ID: mdl-37516099
Mandarin fish (Siniperca chuatsi) is a carnivorous freshwater fish and an economically important species. The digestive system (liver, stomach, intestine, pyloric caecum, esophagus, and gallbladder) is an important site for studying fish domestication. In our previous study, we found that mandarin fish undergoes adaptive changes in histological morphology and gene expression levels of the digestive system when subjected to artificial diet domestication. However, we are not clear which hub genes are highly associated with domestication. In this study, we performed WGCNA on the transcriptomes of 17 tissues and 9 developmental stages and combined differentially expressed genes analysis in the digestive system to identify the hub genes that may play important functions in the adaptation of mandarin fish to bait conversion. A total of 31,657 genes in 26 samples were classified into 23 color modules via WGCNA. The modules midnightblue, darkred, lightyellow, and darkgreen highly associated with the liver, stomach, esophagus, and gallbladder were extracted, respectively. Tan module was highly related to both intestine and pyloric caecum. The hub genes in liver were cp, vtgc, c1in, c9, lect2, and klkb1. The hub genes in stomach were ghrl, atp4a, gjb3, muc5ac, duox2, and chia2. The hub genes in esophagus were mybpc1, myl2, and tpm3. The hub genes in gallbladder were dyst, npy2r, slc13a1, and slc39a4. The hub genes in the intestine and pyloric caecum were slc15a1, cdhr5, btn3a1, anpep, slc34a2, cdhr2, and ace2. Through pathway analysis, modules highly related to the digestive system were mainly enriched in digestion and absorption, metabolism, and immune-related pathways. After domestication, the hub genes vtgc and lect2 were significantly upregulated in the liver. Chia2 was significantly downregulated in the stomach. Slc15a1, anpep, and slc34a2 were significantly upregulated in the intestine. This study identified the hub genes that may play an important role in the adaptation of the digestive system to artificial diet, which provided novel evidence and ideas for further research on the domestication of mandarin fish from molecular level.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Perciformes / Peces Tipo de estudio: Diagnostic_studies Límite: Animals Idioma: En Revista: Comp Biochem Physiol Part D Genomics Proteomics Asunto de la revista: BIOLOGIA / GENETICA Año: 2023 Tipo del documento: Article Pais de publicación: Países Bajos

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Perciformes / Peces Tipo de estudio: Diagnostic_studies Límite: Animals Idioma: En Revista: Comp Biochem Physiol Part D Genomics Proteomics Asunto de la revista: BIOLOGIA / GENETICA Año: 2023 Tipo del documento: Article Pais de publicación: Países Bajos