Characterization of the complete chloroplast genome sequence of submerged macrophyte Stuckenia pectinata (Potamogetonaceae) and its phylogenetic position.

Stuckenia pectinata is widely distributed submerged macrophyte in the world. Herein, the complete chloroplast genome of this species was assembled and characterized using whole genome next-generation sequencing. The complete chloroplast genome showed a circular genome of 156,669 bp size with 36.5% GC content. The genome is of typical structure and contain a pair of inverted repeat (IR) regions with 26,074 bp, separated by one large single-copy (LSC) with 86,285 bp, and one small single-copy (SSC) regions with 18,236 bp. De novo assembly and annotation showed the presence of 131 unique genes with 85 protein-coding genes, 38 tRNA genes, and eight rRNA genes. A maximum-likelihood phylogenomic tree reconstructed based on 15 chloroplast genomes reveals that S. pectinata is most closely related to Zostera marina.