Diatoms from three samples taken from Late Miocene sediment at three different outcrops along the Ebiya Gorge, Naru, Mitoku area in Misasa Town, Tottori Prefecture were investigated and authors found them to contain 45 taxa belonging to 27 genera, of which 41 taxa in 25 genera were identified. The diatom assemblage of the lowest sample (TOT-201) was dominated by Cyclotella kohsakaensis with a frequency of 73%, followed by Staurosirella lapponica at 11% and Diploneis subovalis at 3%. The diatom assemblages of the two upper samples (TOT-202,203) were very similar containing mostly Staurosirella lapponica with a frequency of 53-61%, followed by Aulacoseira italica at 10-14%, Pseudostaurosira brevistriata var. inflata at 2-6%, Mesodictyon sp. at 3-4% and Epithemia turgida at 2-4%. This report lists all the Late Miocene freshwater diatoms found in the three assemblages and notes the characteristics of five species.