Phylogenomics of Anguis and Pseudopus (Squamata, Anguidae) indicates Balkan-Apennine mitochondrial capture associated with the Messinian event

•Genome-wide dated phylogenetic reconstruction of Western Palearctic anguid lizards.•Mitonuclear discordance found in Anguis veronensis from the Apennine Peninsula.•Mitochondrial capture occurred during the Messinian event from the Balkans.•The oldest division in Anguis separates A. cephallonica from the A. fragilis species complex.•Genomic divergences within Pseudopus support the concept of a single species.