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Appendix S1 Type specimens housed in the Transvaal Museum currently synonymized within Macroscelides proboscideus proboscideus or Elephantulus rupestris.

Appendix S2 Sample localities, haplogroups, geographic coordinates, number of specimens included and source material for (a) Macroscelides proboscideus proboscideus and (b) Elephantulus rupestris.

Appendix S3 List of primers developed. The sequences are reported 5′[RIGHTWARDS ARROW]3′ and characteristics are mentioned.

Appendix S4 Parsimony tree showing the monophyly of Macroscelides proboscideus proboscideus and of Elephantulus rupestris.

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