Chromosome-level genome of the peach fruit moth Carposina sasakii
(Lepidoptera: Carposinidae) provides a resource for evolutionary studies
on moths
Abstract
The peach fruit moth (PFM), Carposina sasakii Matsumura, is a major
phytophagous orchard pest widely distributed across Northeast Asia.
Here, we report the chromosome-level genome for the PFM, representing
the first genome for the family Carposinidae, from the lepidopteran
superfamily Copromorphoidea. The genome was assembled into 404.83 Mb
sequences using PacBio long-read and Illumina short-read sequences,
including 275 contigs, with a contig N50 length of 2.62 Mb. All contigs
were assembled into 32 linkage groups assisted by the Hi-C technique,
including 30 autosomes, a female specific W chromosome and a Z
chromosome. BUSCO analysis showed that 98.2% genes were complete and
0.4% of genes were fragmented, while 1.4% of genes were missing in the
assembled genome. In total, 23,218 protein-coding genes were predicted,
of which 82.72% were functionally annotated. Because of the importance
of diapause triggered by photoperiod in PFM, five circadian genes in the
PFM as well as in the other related species were annotated, and
potential genes related to diapause and photoperiodic reaction were also
identified from transcriptome sequencing. In addition, manual annotation
of detoxification gene families was undertaken and showed a higher
number of ABC and GST genes in PFM than in most other lepidopterans, in
contrast to a lower number of UGT genes, suggesting different
detoxication pathways in this moth. The high-quality genome provides a
resource for comparative evolutionary studies of this moth and its
relatives within the context of radiations across Lepidoptera.