Abstract: This paper defines the networking strategy of emerging Industrial enterprises from both the integration of industry chain and innovation chain and the absorptive capacity of enterprise knowledge under the secondary incubation scenario. Meanwhile, based on the dynamic simulation model of emerging industry knowledge network constructed by complex network theory, it also reveals the evolution law of emerging industry on innovation network and knowledge level under enterprises’ different networking strategies when secondary incubating. The result of research shows that the innovative network evolution and knowledge emergence can be affected by enterprise networking strategies. And emerging industries will eventually realize the emergence of knowledge networks, while adopting different networking strategies such as knowledge depth, knowledge width and integration orientation. But there still are differences among various evolution rules of innovation network and knowledge level. To sum up, while promoting industrial agglomeration, attracting and cultivating companies with heterogeneous knowledge and increasing the integration of innovation chain and industrial chain plays an important role in improving the secondary incubation function.