Evolutionary models addressing interaction between genetics and morphology propose that during development, morphological traits of organisms are under canalization selection resulting in constancy in morphology through evolutionary time. The hypothesis of genetic homeostasis predict that because of developmental buffering effects of heterosis, high level heterozygosity results in low level of morphological variance from the norms of canalized shape of the population. The aim of the present study is to test whether the variation in shape of organisms is negatively correlated with genetic variation in Pseudophoxinus populations. Sample collection was performed from eight localities for four different Pseudophoxinus species (P. crassus, P. battalgili, P. egridiri, P. sp) in Central and South Anatolia in summer period of 2006. Shape variation of the specimens was determined using geometric morphometric methods. Genetic variation was based on six microsatellite and ten allozyme loci. All the microsatellite loci were found to be polymorphic. However, the percentage of monomorphic locus for allozymes varied from 90% to 60% per population. Statistically significant negative correlation was observed between shape and genetic variation derived from microsatellite data. However, this was not the case for allozyme heterozygosity / there wasn&rsquo / t any significant relationship between shape variation and allozymes heterozygosity. Low number of polymorphic loci observed in allozymes may prevent to reveal possible relationship between shape and genetic variations. As a result, the present study confirmed the hypothesis of genetic homeostasis for microsatellite data.