Maximum likelihood (ML) phylogeny of stomatin family members. Neighbour Joining (NJ) and ML trees were constructed with the same 149 amino acid alignment. 100 ML and 1000 NJ bootstraps were performed. Percentage bootstrap values are shown for the major groups that were recovered in either the ML or NJ (in parentheses) phylogeny. The virus sequence comes from the Acanthamoeba polyphaga mimivirus. The scale bar indicates the number of amino acid substitutions per site. The length of each triangle corresponds to longest branch length, whilst the height represents the number of taxa. Names in square brackets represent previous nomenclature. The full tree is available as additional file 1: Figure A1. Note the partitioning of the family into at least four major groups termed here paraslipins, eoslipins, slipins and alloslipins, with a long internal branch between paraslipins and the other subfamilies where we have tentatively located the root. Accession numbers available in Additional file 2.