Polyamines (PAs) can improve drought stress tolerance in plants; however, very limited information is available on the mechanism of action of exogenous application by different methods under drought stress in wheat. The present study investigates the mechanism through which seed priming and foliar spraying with PAs protect wheat plants from drought stress. 10 days old wheat seedlings were exposed to drought stress by withholding water alone or with 100 μM PAs solutions (putrescine, Put; spermine, Spm; and mixture of Put and Spm for 10 h seed-priming or three foliar sprays during withholding water. Drought stress impaired the wheat growth and altered the osmoprotectants, endogenous PAs levels, PAs biosynthetic genes expression and weight of 1000 grains compared to the corresponding control values. Exogenously applied PAs improved cell water status, accumulated osmoprotectants and PAs and up-regulated PAs biosynthetic genes, ADC, arginine decarboxylase; DHS, deoxyhypusine synthase; ODC, ornithine decarboxylase and SAMDC, S-adenosyl methionine decarboxylase. Put significantly regulate the endogenous PAs by both methods of application, however, Spm and mixture of Put and Spm could positively regulate the endogenous PAs and the biosynthetic gene expression by foliar spraying rather than seed priming. The data provide evidence that maintenance of water economy through stabilized cellular structure is an important strategy of drought tolerance by PAs in wheat.