The polycystic ovary syndrome（PCOS）is defined as a complex endocrine syndrome，which exhibits chronic ovulatory disorders，hyperandrogenism，insulin resistance and some other metabolic disorders. However，the mechanisms underlying these various clinical signs and symptoms are still not entirely known，which causes difficulties for clinical diagnosis and treatment of PCOS. Along with the development of metabonomics technologies，the available technique to detect and comprehensively analyze the innumerable small-molecule metabolities，may allow to find out the interactions between the symptoms and pathogenesis of PCOS， indicate the origin of these metabolic alterations，and discover new metabolic biomarkers for PCOS. This review summarizes the metabolites associated with PCOS according to recent metabolomic studies，and hopefully，some new biomarkers may serve to predict the progression of the disease and promote clinical individualization of diagnosis and treatment.