A new spikemoss species, Selaginella wuyishanensis, is described and illustrated based on materials collected from Fujian Province, East China. The new species can be distinguished from S. lutchuensis Koidzumi and S. albociliata P. S. Wang by its leaves with extremely long cilia (up to 8 mm) and distinctly white margins, ovate ventral sporophylls, and sporophyll-pteryx completely inverted on dorsal sporophylls. In the present work, a molecular phylogeny, taxonomic description, distribution information, line drawing, and photographs of this new species are presented. A morphological comparison is also given to distinguish it from morphologically similar species in Selaginella sect. Tetragonostachyae (Hook. & Grev.) Hieron. & Sadeb.