Genetic Diversity and Population Differentiation of Farmed Nile Tilapia (Oreochromis niloticus Linnaeus, 1758) to Advance Selective Breeding in Uganda

Despite the importance of Nile tilapia as a main aquaculture species in Uganda, limited research has been conducted concerning its genetic diversity, particularly in farmed populations. This gap has hindered the development of a systematic breeding program for this species. Successful aquaculture development, especially for genetic improvement, relies on the diversity and purity of wild and farmed populations as germplasm sources for selective breeding. Using microsatellite markers, the current study evaluated the genetic diversity of 480 samples collected from 20 populations of Nile tilapia (Oreochromis niloticus) in Uganda. All the populations exhibited a higher expected heterozygosity (0.50 ± 0.01) than observed heterozygosity (0.42 ± 0.01), although this was not significantly different. Populations from ponds showed lower FST values (<0.001), an indication of lower genetic differentiation. The populations formed four main clusters; the first comprising of mainly cages (Pal and Busana), the second with cages: Katosi and SON in addition to Rocks hatchery, the third comprised of Bawe cage fish farm and Tendo hatchery, and the fourth were populations from ponds and beaches on Lake Victoria. Given the higher genetic diversity and genetic differentiation of Tendo and Rocks populations, these farms would provide potential candidates for the development of local strains in Uganda. These results provide more insights into the management of local Nile tilapia strains towards reduction of inbreeding levels.