The plant Aegle marmelos Linn. belongs to family "Rutaceae" known as Bael is the accepted source of the drug and it is found throughout of India. The root of Aegle marmelos was selected for the present investigation. The roots stored at different relative humidities 30, 50, 75, 96 and 100% RH for 90 days. In the present study, total 20 fungal species were isolated from root samples. Fusarium solani (22.25%) showed highest percentage incidence. Quantitative estimation of carbohydrate relation to association of fungi was done. Maximum deterioration of carbohydrate contents and percentage incidence of fungi in the roots was showed at above 96% RH.