Long-read genome assemblies reveals a cis-regulatory landscape associated with phenotypic divergence in sister Siniperca fishes. Siniperca scherzeri

We assembled and annotated a high-quality genome of S.chuatsi and S.scherzeri by long-reads data. Based on this, this project will use the methods of comparative genomics to obtain the structural variations related to the trait differentiation of S.chuatsi and S.scherzeri. Through epigenomics analysis, differentially cis-regulatory elements were identified in S.chuatsi and S.scherzeri. Finally, combining the results of multiple omics to obtain the structural variations of the cis-regulatory elements, and obtain the candidate genes for the differentiation of mandarin fish species. Through the analysis and verification of the candidate genes, it is fully revealed that the mechanism of cis-regulatory elements variation in regulating the traits differentiation of S.chuatsi and S.scherzeri.