Scalpellids are one of the largest families of Scalpelliformes and reproduce either androdioeciously or dioeciously. Here, we characterized the first mitogenome of a scalpellid barnacle (
Arcoscalpellum epeeum
), which was 15,593 bp in length with a 71.5% AT content. In comparison with the pollicipedids
Capitulum mitella
and
Pollicipes polymerus
, the tRNA genes of
A
.
epeeum
were rearranged between ND3 and ND5, between CYTB and ND1, and between 12S rRNA and ND2. On the mitogenomic tree, the Scalpelliformes families Pollicipedidae and Scalpellidae were not monophyletic, which concurs with previous studies.