A telomere-to-telomere genome assembly of wild ancestor of Chinese oak silkmoth,Antheraea pernyi
Chinese oak silkmoth Antheraea pernyi is one of the most famous wild silkmoths worldwide used for insect food, wild silk, and potential biomedical material. Although a chromosome-level genome assembly of domestic type(ApD) of this economically important species has been released, the genomic information on its wild ancestor is extremely lacking. Here, we report a telomere-to-telomere genome assembly of wild ancestor of A. pernyi(ApW), named ApW-SYAU. K-mer analysis based on Illumina short reads revealed a high level of heterozygosity of 2.8% for ApW. By integration of PacBio HiFi reads, ONT Ultra-long reads, Illumina Hiseq short reads, and Hi-C reads, we assembled a near-complete genome of 694.41 Mb long with contig N50 of 13.2 Mb, and 49 chromosomes. This final genome assembly comprises 96 contigs, only six gaps remain to be filled, and a total of 3,180,379 bp sequences(0.46%) from 41 contigs could not anchor on the assembly. The ApW-SYAU genome contains55.07% of repetitive sequences, with a total length of 382,409,190 bp, mainly the Helitron and Long interspersed nuclear element(LINE) families. Depending on the coverage of the repeats, 49 centromeres and 87 telomeres were identified, and 34 chromosomes with zero gap were constructed. In total, 24,783protein-coding genes were identified in the ApW-SYAU genome, a number much higher than its domestic counterpart ApD(20,814), C. japonica(20887), S. ricini(20,366), A. yamamai(14638), and B. mori(16,815). A rooted phylogenetic inference based on 1433 single-copy genes identified by OrthFinder confirmed the close relationship between ApW and its domestic counterpart ApD, and MCMCTree estimated that ApD diverged from its wild ancestor ApW about 3.22~25.87 Mya, far greater than that between the domestic silkmoth(B. mori) and its wild ancestor(B. mandarina) with a divergence time of0.003985~0.004305 Mya. The high-quality genome assembly present here will provide insight into evolutionary patterns between wild and domestic type of A. pernyi.