A field experiment was conducted to study the effects of long integrated fertilization with organic manure and chemical fertilizers on crop yields and soil nutrients in a rice-wheat rotation system. Five year monitoring results showed both organic manure and chemical fertilizer could get a high yield level. In this region there was significant difference on the system yield in the first two years between the continuous use of N fertilizer alone and the use of NPK fertilizers together. The integrated fertilization with organic manure and chemical fertilizers increased the content of soil alkli-N, available-P and available-K．Most of nitrogen was in NO3--N form, organic manure decreased the content of NH4+-N. Multi-regression analysis between soil nutrients revealed that significant linear correlation between available-P and available-K due to the same origin of P and K fertilized into soil with organic manure and chemical fertilizers. Soil alkli-N was significantly correlated with NO3--N, but with insignificantly with NH4+-N, and soil available-P was correlated significantly with available-Fe.