GSE114714
Analysis of miRNA-seq in the liver of common carp (Cyprinus carpio L.) in response to different environmental temperatures
We found a total of 110 known miRNAs were identified by aligning the sequencing data with the known C. carpio miRNAs listed in miRBase 20.0. From 29 known miRNAs that were differentially expressed in low- and high-temperature groups, as compared with in control group, we selected 10 (let-7a, miR-135c, miR-184, miR-203a-3p, miR-210-3p, miR-27d, miR-301a, miR-92b-3p, miR-187 and miR-10d-5p) for validation by quantitative real-time PCR. Bioinformatics tools were used to predict the potential target genes of differentially expressed miRNAs. Gene Ontology and KEGG enrichment analysis indicated that the miRNAs may play important roles in metabolism and processing information about the environment, thus enabling common carp to adapt to their immediate environment. Specifically, we considered the insulin-signaling pathway and glycerophospholipid metabolism pathways. The results show that the gpam gene was negatively regulated by miR-301a and miR-27d, and miR-210 was negatively regulated by the prkaa1 gene in the insulin-signaling pathway. In glycerophospholipid metabolism pathways, the psid and agpat3 genes were negatively regulated by miR-302b-5p and miR-9-5p, respectively; the cdipt and gpam genes were negatively regulated by miR-27d; and the pgs1 gene was negatively regulated by miR-92b-3p and miR-155. These findings suggest that significant changes occur in the energy metabolism and metabolic processes associated with components of the cell membrane of carp at different environmental temperatures. The new data provide a foundation for further studies of the role of miRNAs in environmental adaptation in fish and may help to identify novel targets for additional study, with applications for reducing environmental stress in farmed fish. Overall design: We used small RNA sequencing to detect miRNA transcriptomes of liver from common carp with low temperature group (LTG) and high temperature group (HTG) compared them with control libraries (CG) (3 vs. 3).