Comparative multi-omic analyses of Trichinella Pseudospiralis based on a new genome assembly by long-read sequencing

Genome assemblies can form the basis of comparative analyses fostering insight into the evolutionary genetics. Genome evolution influences a parasite’s pathogenicity, host–pathogen interactions, environmental constraints and invasion biology. Comparative genomics and epigenomics analyses will provide deep understanding of parasitism biology for future diagnosis and prevention of trchinellosis. We provide a near-complete new T.p reference genome using SMRT technology, first time confirmed and characterized T.p DNA methylome, enabling full annotation. Based on this new version, we show repetitive sequences play important role in genome expansion, in synergy with DNA methylation during evolution. We further portrait the genomic and epigenomic regulation on E-S products in relation with their parasitism differences, especially for two super-families, including DNase II and EGF-like domain proteins. We generated single-base resolution maps of DNA methylation using whole-genome bisulfite sequencing and gene expression pattern by RNA-seq for three life stages(adults (Ad), muscle larvae (ML) and newborn larvae (NBL)).