The ability to perform DNA amplification on a microfluidic device is very appealing. In this study, a com-pact continuous-flow polymerase chain reaction (PCR) microfluidics was developed for rapid analysis of genetically modified organisms (GMOs) in genetically modified soybeans. The device consists of three pieces of copperand atransparentpolytetrafluoroethylenecapillary tubeembedded inthespiralchannel fabricated onthecopper.Onthisdevice,theP35Sand Tnossequences weresuccessfully amplified within1 9min, and the limit of detection of the DNA sample was estimated to be 0.005ngμl-1. Furthermore, a duplex continuous-flow PCR wasalsoreportedfor thedetectionof theP35Sand Tnossequences inGMOs simultaneously. This method was coupled with the intercalating dye SYBR Green I and the melting curve analysis of the amplified products. Using this method, temperature differences were identified by the specific melting temperature values of two sequences, and the limit of detection of the DNA sample was assessed to be 0.01ngμl-1. Therefore, our results demonstrated that the continuous-flow PCR assay could discriminate the GMOs in a cost-saving and less time-consuming way.