The genetic structure of Labeo rohita in hatchery stocks of the province Punjab was assessed by using five species-specific
microsatellite markers. The samples of L. rohita were collected from six selected hatcheries. The genotypic data of each
sample was generated through PCR amplification of target loci and allelic scoring by gel electrophoresis. The data was
analyzed for calculation of various indices of genetic diversity. The polymorphism was observed for all alleles and allelic
size fluctuated sample to sample over all the loci. We found low to moderate level of heterozygosity with the average values
of Ho and He as 0.42-0.7 and 0.661-0.717 respectively. The inbreeding coefficient FIS values showed the highest level of
inbreeding in Mianchannun hatchery and lowest in Faisalabad hatchery. The analysis of FST, genetic distance, AMOVA and
UPGMA dendrogram revealed genetic closeness between Faisalabad, Farooqabad and Mianchannun hatcheries. Knowledge
on the genetic structure of L. rohita populations will be useful for effective broodstock management and conservation.
