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Background  Maize seedlings are constantly exposed to inorganic phosphate (Pi)-limited environments. To understand how maize cope with low Pi (LP) and high Pi (HP) conditions, physiological and global proteomic analysis of QXN233 genotype were performed under the long-term Pi starvation and supplementation.    Methods  We investigated the physiological response of QXN233 genotype to LP and HP conditions and detected the changes in ion fluxes by non-invasive micro-test technology and gene expression by quantitative real-time polymerase chain reaction. QXN233 was further assessed using vermiculite assay, and then proteins were isolated and identified by nano-liquid chromatography-mass spectrometry.    Results  A negative relationship was observed between Na +  and Pi, and Na +  efflux was enhanced under HP condition. Furthermore, a total of 681 and 1374 were identified in the leaves and roots, respectively, which were mostly involved in metabolism, ion transport, and stress response. Importantly, several key Pi transporters were identified for breeding potential. Several ion transporters demonstrated an elaborate interplay between Pi and other ions, together contributing to the growth of QXN233 seedlings.    Conclusion  The results from this study provide insights into the response of maize seedlings to long-term Pi exposure.    Electronic supplementary material  The online version of this article (10.1186/s12953-018-0147-3) contains supplementary material, which is available to authorized users.

Key factors identified by proteomic analysis in maize (Zea mays L.) seedlings’ response to long-term exposure to different phosphate levels