mtDNA has been widely used as a molecular marker to investigate the phylogenesis of many species. D-Loop has important value for investigating intraspecific genetic differentiation because of its high mutation accumulation. Fish is the most primitive vertebrate, but by far is the most dominant in number. The distribution of fish is broad and its origin is very complicated, has always been a very interesting subject for investigation. D-Loop has many important implications for investigating the intraspecific genetic differentiation of fish. Recently, much insight has been gained by the increasing use of D-Loop as a molecular marker for investigating the intraspecific genetic differentiation of fish. Lake Qinghai is the biggest inland saline lake in China. The main fish in the lake is scaleless carp (Gymnocypris przewalskii). Initial analysis of its D-Loop showed no intraspecific genetic differentiation among the populations in the lake and the rivers around.