Variation in the mitochondrial control region in the Juan Fernández fur seal (Arctocephalus philippii).

The Juan Fernandez fur seal (Arctocephalus philippii was allegedly extremely abundant, numbering as many as 4 million prior to sealing which continued from the late 17th to the late 19th century. By the end of the sealing era the species was thought to be extinct until they were rediscovered at Alejandro Selkirk Island in 1965. Historic records would suggest that the species underwent a substantial population bottleneck as a result of commercial sealing, and from population genetic theory we predicted that the genetic variability in the species would be low. We compared the mtDNA control region sequence from 28 Juan Fernandez fur seals from two islands in the Juan Fernandez Archipelago (Chile). Contrary to expectation, we found that variation in the Juan Fernandez fur seals is not greatly reduced in comparison to other pinniped taxa, especially given the apparent severity of the bottleneck they underwent. We also determined minor, but significantly different haplotype frequencies among the populations on the two islands (Alejandro Selkirk and Robinson Crusoe Islands), but no difference in their levels of variability. Such differences may have arisen stochastically via a recent founder event from Alejandro Selkirk to Robinson Crusoe Island or subsequent genetic drift.