Due to their characteristics, such as powerful regeneration capability, high susceptibility to xenobiotics, wide distribution and weak dispersion ability, planarians are used as ideal test animals in several research fields, and planarianology has become a more and more active subject. This paper reviews the research progress of planarians from the aspects of molecular phylogeny, molecular taxonomy, population genetics and phylogeography, and also summarizes the corresponding molecular markers applied. Moreover, the future direction and tendency in this field is briefly analyzed and prospected.