C. Shih is a rare genus of the Asteraceae family native to the Taihang Mountains in China. Due to the narrow distribution area, poor reproduction ability and human harvesting, is threatened by extinction. However, the limited genetic information within impede understanding of the conservation efforts and bioprospecting. Therefore, in this study, we reported the complete chloroplast (cp) genome sequences of two species, including and . The cp genomes of and were 151,117 and 151,123 bp, which contained 88 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. The repeat sequences, codon usage, RNA-editing sites, and comparative analyses revealed a high degree of conservation between the two species. The 1 gene was identified as a potential molecular marker. The phylogenetic tree demonstrated that was a separate species and not a synonym or variety of The molecular clock showed that two species diverge over a large time span, diverged at 15.24 Mya (Million years ago), whereas diverged at 5.40 Mya We found that and are closely related, which provides new ideas for the development of These results provide biological information and an essential basis to understand the evolutionary history of the species, which will aid in the future the bioprospecting and conservation of endangered species.