Abstract: 【Objective】 To analyze the differences of related proteins and enzymes involved in phenylpropanoid metabolism in pathogenesis from diverse melons’ peel and pulp tissues, which are stored in room temperature (25℃) and explore the endogenous disease resistance of melons stored at room temperature. 【Methods】 Melon was were inoculated with Alternaria alternata, and their epricarp, endocarp and pulp tissues were separated during the storage. The pathogenesis related proteins and enzymes involved in phenylpropanoid metabolism in different tissues of muskmelons were measured in different storage days,and the disease resistance of different tissues of melon were analyzed. The indicators in these issues were measured every other day to deduce their the disease resistance. Compared with previous researches, the effects of different storage temperatures on disease resistance of muskmelon were figured out as well. 【Results】 During storage, the lesion diameter of Jiashigua was smaller than 86-1 melon’s, the lesion size in the peel and pulp of 86-1 melons reached 1.55 and 1.375 times bigger than Jiashigua’s on the 16th day. Activities of Chitinase (CHT) and β-1,3-glucanase (GLU) in melon showed a trend of increasing first and then decreasing, and the enzyme activity of Jiashigua was higher than 86-1 melon’s, exocarp was higher than endocarp and pulp tissue. Compared to 86-1 melon, Jiashigua reached the peak of enzyme activity in a shorter time. 【Conclusion】 It is found that temperature has no obvious effect on the change trend of the pathogenesis related proteins and enzymes involved in phenylpropanoid metabolism in melons, and enzyme activities all show a trend of increasing at first and then decreasing; In terms of disease resistance, Jiashigua is superior to 86-1 melon. In dealing with the infection of Alternaria alternata, peels have stronger disease resistance than pulps do, so Jiashigua is more active to resist than 86-1 melon facing the infection of Alternaria alternata.