Pecan (Carya illinoinensis) is sensitive to Zn, which is involved in basic physiological and biochemical processes. To explore the growth and physiology of pecan in response to Zn application, we used 1-year-old annual grafted seedlings (Pawnee) and applied four concentrations of Zn fertilizer (0.05, 0.10, 0.20 and 0.40g·plant-1 ); a control (CK; no Zn fertilization) was also included. The growth characteristics, anatomical structure of the leaves and photosynthesis were assessed. Compared with the CK, photosynthesis and chlorophyll (Chl) fluorescence parameters, leaf area and leaf structure significantly increased at Zn concentrations of 0.05 and 0.10g·plant-1 . In addition, growth of pecan at the seedling stage increased in response to moderate Zn application. In contrast, treatment with 0.20 and 0.40g·Zn·plant-1 dramatically decreased these physiological indices and inhibited pecan growth. The results show that moderate soil Zn application promotes pecan growth and development by increasing photosynthesis. However excess Zn concentrations were not conducive to seedling growth. The concentration of 0.1g·Zn·plant-1 was best when considering long-term soil Zn applications, providing a theoretical foundation for microelement management of pecan.