Beidou navigation system (BDS) has been developed as an integrated system. The third BDS, BSD-3, will be capable of providing not only global positioning and navigation but also data communication. When the volume of data transmitted through BDS-3 continues to increase, BDS-3 will encounter network traffic congestion, unbalanced resource usage, or security attacks as terrestrial networks. The network traffic monitoring is essential for automatic management and safety assurance of BDS-3. A dynamic traffic detection method including traffic prediction by Long Short-Term Memory (LSTM) and a dynamically adjusting polling strategy is proposed to unevenly sample the traffic of each link. A distributed traffic detection architecture is designed for collection of the detected traffic and its related temporal and spatial information with low delay. A time-varying graph (TVG) model is introduced to represent the dynamic topology, the time-varying link, and its traffic. The BDS-3 network is simulated by STK. The WIDE dataset is used to simulate the traffic between the satellite and ground station. Simulation results show that the dynamic traffic detection method can follow the variation of the traffic of each link with uneven sampling. The detected traffic can be transmitted to the ground station in near real time through the distributed traffic detection architecture. The traffic and its related information are stored by using Neo4j in terms of the TVG model. The nodes, edges, and traffic of BDS-3 can be quickly queried through Neo4j. The presented dynamic traffic detection and representation schemes will support BDS-3 to establish automatic management and security system and develop business.