Recently there has a growing interest in MS-based analysis on Leishmania for biology study, host-parasite interaction and drug target discovery. The aims of this study were to analyzed protein profiles in the procyclic and metacyclic stages of L. tropica, and investigate their potential role in metacyclogenesis molecular mechanisms. Sequential window acquisition of all theoretical fragment ion spectra mass spectrometry (SWATH-MS) analysis was used to analyze protein profiles in each of procyclic and metacyclic stages. Proteins with a fold change>2 or