Marine Holocene fossil diatoms were studied from different locations along the Gulf of Suez. Quantitative and qualitative diatom analyses from the sea floor sediments of the Gulf of Suez at different depths were used to evaluate the paleo-environmental conditions during the Holocene. Sea floor samples were taken from twelve locations at different depths ranging from 15 to 275ft. below sea level. A total of 106 taxa related to 48 genera were identified from 12 sediment samples examined from the north, middle and south of the Gulf of Suez at different depths. Those diatom taxa were used according to their habitat preferences and ecological conditions to predict the water quality fluctuations during the Holocene.