Abstract
The marble trout (Salmo marmoratus) is an endangered species in Slovenia (and in Italy, Croatia and Albania) because of hybridization resulting from intensive stocking. Eleven populations of trout from the Soca river basin (Slovenia) were analysed using 31 presumptive enzyme loci. Three European control samples representing the main European genotypes of brown trout were also analysed. This analysis confirmed the existence of extensive hybridization in the main river, resulting in an equal mixture of alleles belonging to marble trout, and Danubian and Atlantic brown trout (Salmo trutta). Despite the high level of introgression observed in the main Soca River, nearly pure populations of marble trout were found in the headwaters of five tributaries. The five stations with pure marble trout will be the basis of a rehabilitation programme. Hardy–Weinberg and linkage disequilibria were observed and hypotheses are discussed to explain this. A scenario for the colonization of the Adriatic region is proposed.