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Lake Tanganyika comprises the oldest and most diverse species flock of cichlid fishes. Many species are subdivided into numerous populations, often classified as geographical races, colour morphs or sister species. Unlike younger species flocks, in which speciation is accompanied by eco-morphological diversification that of Lake Tanganyika is at a mature stage with little further morphological change, most probably caused by stabilizing selection. This study addresses body shape differences among three genetically distinct but morphologically similar populations of Tropheus moorii, by focusing on bony structures of the cichlid head. We test by means of geometric morphological methods whether shape changes in the cichlid head are based on particular osteological differences. Specimens were disarticulated enzymatically, and standardized digital images of the disarticulated bony elements were taken. A landmark system was established for the dentary, articular, premaxilla, quadrate and the preopercle. Only the dentary shows significant differentiation among the three populations. Since all three populations live in similar cobble habitats and occupy the same trophic niche, the observed difference in the shape of the dentary can either be explained by different directional selection due to subtle habitat differences, or by neutral drift constrained by borders enforced through stabilizing selection. Lack of difference might indicate stabilizing selection on bone shape.

Lake Tanganyika harbours the oldest and ecologically, morphologically and behaviourally most diverse species flock of cichlid fishes. Its species are excellent subjects for the study of explosive speciation and adaptive radiation. Many species are subdivided into numerous genetically and phenotypically distinct populations, often classified as distinct geographical races or colour morphs, which mostly differ in colour and much less in terms of morphology. This study for the first time quantifies morphological differences among such morphs by studying three populations of Tropheus moorii. We compared traditional morphometrics (TM) and geometric morphometrics (GM) to explore their potential for discriminating populations. So far species description and population discrimination are almost solely based on TM in the form of standardized measurements, although specialists are aware of their lack of diagnostic power for discrimination of closely related entities. Moreover, comprehensive TM measurements are time consuming and can best be done on dead specimens which have to be preserved in the case re-measuring is necessary. In contrast, GM can also be based on photographs and computer scans of anaesthetized fish, so that the same individual can be repeatedly analysed during its ontogeny. Here, we show that GM is more flexible in data acquisition and more powerful in the discrimination of species and closely related populations. While TM is restricted to distances and ratios of distances, GM not only includes these measurements indirectly, but also allows for body shape analysis using a semi-landmark approach. It can be equally standardized as TM by defining diagnostic landmarks. Data description by canonical variate analysis was most informative using GM data including semi-landmarks, whereas differences between populations were significant (p < 0.05) based on both morphological approaches.