PurposeThe purpose of this paper is to solve the problem of low efficiency on knowledge resources allocation in the strategic emerging industry (SEI), an incentive model of technology innovation based on knowledge ecological coupling is designed.Design/methodology/approachFirst, a principal–agent model of knowledge inputs and a knowledge ecological coupling model based on an improved Lotka–Volterra model are constructed. In addition, a numerical example about Chongqing Yongchuan industrial park, the emulation analysis and the associated discussions are conducted to analyze the equilibriums of principal–agent in different knowledge inputs. Further, the paper analyzes the evolutionary equilibrium in knowledge ecological coupling and reveals the dual adjustments of the node organization on knowledge inputs.FindingsThus, this paper shows that by establishing the relationships of knowledge ecological coupling based on “mutualism and commensalism,” node organization raises the level of knowledge inputs; an incentive mode of “knowledge ecological coupling relationship + technology innovation chain” is conductive to substantially improving the efficiency of knowledge resource allocation, and to stimulate the vitality of node organization for technology innovation in the strategic emerging industry (SEI).Originality/valueThis paper contributes to the extant researches in two ways. First, this paper reveals the dual adjustments of the node organizations in inputting knowledge, which broadens the vision and borders of the researches on traditional knowledge management. The methods of the traditional principal–agent model and the knowledge input/output profit model are also expanded. Second, this paper verifies that applying the mode of “knowledge ecological coupling relationship + technology innovation chain” in practice is conducive to enhancing the efficiency of the cross-organizational knowledge allocation in the strategic emerging industry (SEI).