The genome sequence of the scarce swallowtail, Iphiclides podalirius

Abstract

The scarce swallowtail, Iphiclides podalirius (Linnaeus, 1758), is a species of butterfly in the family Papilionidae. Here we present a chromosome-level genome assembly for I. podalirius as well as gene and transposable element annotations. We estimate heterozygosity within different partitions of the genome and find a negative correlation between chromosome length and heterozygosity at fourfold-degenerate sites. This high quality genome assembly, the first for any species in the tribe Leptocircini, will be a valuable resource for population genomics in the genus Iphiclides and comparative genomics more generally.

Find, Label, Annotate Genomes: FLAG, a fully automated tool for structural and functional gene annotation

“…Of them, 3/6 have genome assemblies containing 32,000+ contigs each (Table 1) and were annotated purely based on proteins and transcripts from other species, regardless of if species-specific information was used in their BRAKER2 annotations. These species include Erynnis tages (Dingy skipper Butterfly) (33), Iphiclides podalirius (Scarce Swallowtail Butterfly) (34), Juglans sigillata (Iron Walnut Tree), Macquaria ambigua (Golden Perch) (35), Zosterops japonicus (Japanese white-eye) (36), and Giraffa camelopardalis antiquorum (Kordofan Giraffe) (37). Additionally, we also annotated an extinct species, Anomalopteryx didiformis (Little-bush Moa) (38), whose genome assembly has over 1.7 million contigs.…”

“…Non-model species assemblies annotated in this study along with their BRAKER2 annotations include the dingy skipper butterfly (Erynnis tages (23)), scarce swallowtail butterfly (Iphiclides podalirius (24)), iron walnut tree (Juglans sigillata (10)), golden perch (Macquaria ambigua (25)), Japanese white-eye (Zosterops japonicus (26)), Kordofan giraffe (Giraffa camelopardalis antiquorum (27)), and little-bush moa (Anomalopteryx didiformis (28)). Model RefSeq genome assemblies annotated along with their corresponding NCBI EGAP annotations can be found in the RefSeq database with the following accession numbers: Anna's hummingbird (Calypte anna; GCF_003957555.1), chicken (Gallus gallus; GCF_016699485.2), and zebra finch (Taeniopygia guttata; GCF_003957565.2).…”