The complete chloroplast genome sequence of (Isoetaceae).

is a diploid species of Isoetaceae distributed in low altitude area, its megaspore ornamentation is similar to tetraploid species . We collected leaf material of and sequenced it for low depth whole genome sequence, then, a complete chloroplast genome of was assembled and annotated. This chloroplast genome has a circular structure of 145,494 bp in length with a GC content of 38.0%, comprising a large single copy (LSC) region of 91,860 bp, a pair of inverted repeat (IR) regions of 13,207 bp each, and a small single copy (SSC) region of 27,220 bp. 136 genes were annotated, including 84 protein-coding genes, 38 tRNA genes, and 8 rRNA genes. A maximum likelihood phylogeny tree was reconstructed after the sequences alignment, the result showed that formed a sister clade to the one clustered by , and . Although the chloroplast genome structure of is extremely similar to other species distributed in China, a well-supported phylogenetic relationship was reconstructed here, these results may provide new messages for further studies on phylogeny and evolution of vascular plant on the earth.