Fourier Transform Infrared (FTIR) and Horizontal Attenuated Total Reflectance (HATR) techniques were used to obtain the FTIR of semen cuscutae (the seed from Cuscuta chinensis lam) and Japanese dodder seed (the seed from Cuscuta japonica Choisy). The similar features between the semen cuscutae and Japanese dodder seed are extracted by continuous wavelet transform. The scale 7, 10 and 13 are used to extract the feature vectors, which are used to train the artificial neural network（ANN）. The trained neural network is used to classify semen cuscutaes and Japanese dodder seeds, which are collected from different places all over the country.According to 32 testing samples, we could effectively identify the sibling plants, semen cuscutae and Japanese dodder seed by FTIR with continuous wavelet feature extraction and artificial neural network classification.