Identification of common carp innate immune genes with whole-genome sequencing and RNA-Seq data

The common carp is a candidate model system for immunology research. Using next-generation sequencing technology, we have generated a huge amount of sequence reads from the carp genome and transcriptome. Currently, our aim is to identify carp genes involved in the development of the innate immune response, particularly TIR domain-containing genes, from a preliminary genome assembly. To achieve this, we developed a comprehensive gene identification pipeline. This analysis allowed us to estimate that the carp has 39 TIR domain-containing transcript isoforms and genes.