Abstract: The green space system in the eastern suburb area of Nanjing City was chosen as the research object, while the remote sensing data of SPOT 5 satellite image taken in 2005 and a vector file of Nanjing rapid traffic network in 2005 were taken as the major information sources to analyze the patch grade, the connectivity and spatial structure of the studied green space under the support of ArcGIS 9.2 and connectivity computation software of Conefor Sensinode 2.2 by taking landscape coincidence probability (LCP), integral index of connectivity (IIC), probability of connectivity (PC), and the important value (dI) as evaluation indexes. The core green space area for biodiversity conservation was determined based on calculation of the connectivity indexes. The research results showed that 24 green space patches around the Qinglong Mount, whose area accounted for 35% of the total studied green space area, consisted in the core area for biodiversity conservation in the eastern suburb area of Nanjing City. The mean patch size (MPS) and the largest patch index (LSI) in the core area was 31% bigger and 59.46% higher respectively than those of in the whole study area. Whereas the landscape edge density (ED) and the landscape shape index (LSI) of the core area for biodiversity conservation was 13.55 and 6.59 lower respectively than those of in the whole study area. The most important barrier effect to the core green space area was brought with the NingHang Highway and the HuNing Express. The countermeasures to manage the core green space area for biodiversity conservation in the eastern suburb area of Nanjing City under the impact of rapid traffic network were put forward in the paper.