The complete chloroplast genome of Lilium pumilum Redoute (Liliaceae)

Lilium pumilum Redoute, belonging to Liliaceae, has important ornamental and medicinal values. In the present study, we sequenced the complete chloroplast genome of L. pumilum by Illumina Hiseq X Ten and PacBio RS technologies firstly. The genome size of L. pumilum was 152,591 bp, with typical quadripartite circle structure: one large single copy (LSC, 82,013 bp), one small single copy (SSC, 17,594 bp), and a pair of inverted repeat regions (IRs, 26,492 bp). The overall GC content was 37.02%. The genome contained 130 genes, including 84 protein-coding genes, 38 tRNA genes, and eight rRNA genes. Phylogenetic analysis revealed that 23 Lilium species grouped into two branches, and L. pumilum was related to L. amabile and L. callosum. The present study could afford crucial genetic information for further researches on the genus and related genera.