Integrated circRNA, miRNA and mRNA transcriptome profiling of IHNV-infected rainbow trout spleen and circUSP47-overexpressing rainbow trout hepatocytes.

This study integrated long RNA-seq, small RNA-seq and mRNA-seq datasets to investigate antiviral regulatory networks in rainbow trout. Spleen tissues were collected from uninfected control and IHNV-infected rainbow trout for long RNA sequencing to profile mRNAs, lncRNAs and circRNAs, and for small RNA sequencing to profile miRNAs.

In parallel, rainbow trout hepatocytes transfected with empty vector or circUSP47 overexpression vector were subjected to mRNA sequencing to identify genes and immune-related pathways regulated by circUSP47. Differential expression and integrated ceRNA network analyses were used to identify candidate antiviral regulatory interactions, supporting the circUSP47-miR-30-5p-RNF135 axis in rainbow trout antiviral immunity.