Triaenophora shennongjiaensis (Orobanchaceae sensu lato) is a recently described rare and endangered species endemic to Central China. In this study, the complete chloroplast (cp) genome of T. shennpongjiaensis was assembled based on reads obtained with the Illumina HiSeq platform. The cp genome of T. shennongjiaensis was 15,5319 bp in length and contained a pair of inverted repeat (IR, 27,484 bp) regions separated by a small single copy (SSC, 15,450 bp) and a large single copy (LSC, 84,901 bp) region. It encoded 112 genes including 78 protein-coding genes, 30 tRNA genes, and eight ribosomal RNA genes. The overall AT content of T. shennongjiaensis cp genome is 61.9%. The maximum likelihood phylogenetic analysis supports T. shennongjiaensis as sister to Rehmannia. This result will be helpful for the systematics, conservation, and breeding programs of Triaenophora.
