During a survey of freshwater diatoms from Dongzhen reservoir in Putian City, Fujian Province, China, a newly recorded diatom, Navicula gondwana Lange-Bertalot was discovered. This species was first reported in Australia, but the original scanning electron microscope (SEM) images of the external valve were limited, and the internal valve SEM images were not provided. Based on the application of light microscope (LM) and SEM, the morphological characteristics of the population of Navicula gondwana Lange-Bertalot collected from Fujian were observed and described, and compared with the morphological characteristics of its holotype species and other similar species. The results show that:(1) Navicula gondwana Lange-Bertalot valves are narrowly lanceolate and the ends are rounded. (2) The raphe fissures are simply straight, the proximal raphe end is slightly enlarged and inclined to the valve side, the terminal raphe end extends into a strong hook shape, and two ends' orientation is the same as the proximal raphe end. (3) The axial area is narrowly linear and the central area is irregularly circular. (4) The striae of valves are composed of uniseriate short-lineate areolae, which are arranged radially in the middle and gather at both ends, and there are 11~14 striae within 10 μm. The results of this study are consistent with the morphological and lineal characteristics of Navicula gondwana Lange-Bertalot, so it was identified as Navicula gondwana Lange-Bertalot, which is the first report from the freshwater area in China.