Complete genome assemblies for three variants of the Wolbachia endosymbiont of Drosophila melanogaster

Here we report genome assemblies for three strains of Wolbachia pipientis assembled from unenriched, unfiltered long-read shotgun sequencing data of geographically distinct strains of Drosophila melanogaster. Our simple methodology can be applied to long-read datasets of other Wolbachia-infected species to produce complete assemblies for this important model symbiont.