The Fourier Transform Infrared Spectroscopy of 150 Honeysuckle specimens of nine varieties collected from five regions were obtained to discriminate the sample variety and geographical origin.All specimens were randomly divided into a training set and a validation set.The discrimination analysis based on the original spectra, first-derivate spectra and second-derivate spectra revealed that the model based on the second-derivate spectra has the highest accuracy, and the model based on the waveband of 1800～900 cm-1 was better than that of 1500～700 cm-1 and 1200～700 cm-1, which yielded correct rate of 93.20% for distinguishing variety and 96.13% for identifying origin.The study demonstrated that Fourier Transform Infrared Spectroscopy combining with discrimination analysis might be used as an effective way to distinguish Honeysuckle variety and origins.