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The unique hydrological situation of Jinsha River and the construction and operation of large hydropower stations may cause resident Schizothorax wangchiachii to experience acute changes in water temperature. To reveal the response mechanisms of S. wangchiachii to high and low temperature stress, we conducted a stress experiment. Compared with the control group, the activity of antioxidant enzymes (SOD\CAT) increased first and then decreased at high temperature, while MDA activity in the low temperature group continued to increase slowly. The activities of glycolytic enzymes were increased initially and then decreased including HK and PFK, but PK activity continued to increase throughout the stress period. Transcriptome sequencing showed that a large number of genes in muscle tissues were differentially expressed after high and low temperature stress, and the main enriched pathways included glycosaminoglycan biosynthesis, lysine degradation, glycerolipid metabolism, the PPAR signaling pathway, and the adipocytokine signaling pathway. Significant metabolic pathways were identified as enriched according to the metabolic differences,such as glycerophospholipid metabolism, qRT-PCR was used to verify gene expression. The results suggested that both high temperature and low temperature stress induced physiological responses in S. wangchiachii that maintained homeostasis by regulating glucolipid metabolism and amino acid degradation. This study revealed the response mechanisms of S. wangchiachii to high and low temperature stress, information that may serve as a reference for the study of responses in other fish to environmental changes in the upper reaches of the Yangtze River or where they are displaced by hydropower station construction. [Display omitted] • Levels of antioxidant enzymes\ glycolytic enzymes first increased and then decreased as the time under temperature stress increased, while transaminase activity is elevated to provide energy; • Acute temperature stress causes physiological metabolism and immune response, glycometabolism and fatty acid degradation were enriched; • Schizothorax wangchiachii can maintain their physiological state under high temperature stress by enhancing glycometabolism and regulating lipid and amino acid metabolism pathways. [ABSTRACT FROM AUTHOR]