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Rubus setchuenensis  Bureau et Franch. is important in phylogeny and evolution amongst genus  Rubus  L. (Rosaceae) plants. The chloroplast genome of  R. setchuenensis  reported in this study is 156,231 bp in size, with an average GC content of 37.19%. The complete chloroplast genome has a typical quadripartite structure, including a large single copy (LSC) region (85,829 bp) and a small single copy (SSC) region (18,860 bp), which are separated by a pair of inverted repeats (IRs, 25,771 bp). This plastome contains 129 different genes, including 85 protein-coding genes, 36 tRNA genes, and 8 rRNA genes. The phylogenetic analysis of 20 chloroplast genomes from genera  Fragaria ,  Rosa  and  Rubus  of the family Rosaceae suggested that  R. setchuenensis  clustered into one clade with the other three species of section  Malachobatus  Focke, and then grouped with four species of section  Idaeobatus  Focke, while species from  Fragaria  and  Rosa  were classified into a group, separately.

The complete chloroplast genome of Rubus setchuenensis , an edible and medicinal dual-purpose wild plant