Characterization of the complete chloroplast genome sequence of Daphne retusa Hemsl. (Thymelaeaceae), a rare alpine plant species in northwestern China

Fang Yan; Chun-Yun Zhang; Qin-Li Wang; Jian-Dong Wang; Hai-Ping Wang; Tao Xu; En-Jun Wang; Liang-Yu Hou

doi:10.1080/23802359.2021.1944371

Characterization of the complete chloroplast genome sequence of Daphne retusa Hemsl. (Thymelaeaceae), a rare alpine plant species in northwestern China

Mitochondrial DNA B Resour. 2021 Jun 28;6(8):2139-2141. doi: 10.1080/23802359.2021.1944371. eCollection 2021.

Authors

Fang Yan^{1

2}, Chun-Yun Zhang³, Qin-Li Wang^{1

4}, Jian-Dong Wang³, Hai-Ping Wang³, Tao Xu², En-Jun Wang², Liang-Yu Hou²

Affiliations

¹ Key Laboratory of Hexi Corridor Resources Utilization of Gansu, Hexi University, Zhangye, China.
² Applied Technology Research Institute on original plants for Zushima of Hexi University, Zhangye, China.
³ Taikang Pharmaceutical Limited Liability Company of Gansu Province, Wuwei, China.
⁴ Gansu Engineering Research Center for Resource Utilization of SMS, Hexi University, Zhangye, China.

Abstract

Daphne retusa Hemsl. (Thymelaeaceae) is an evergreen shrub plant. First, we characterized the complete nucleotide sequence of chloroplast (cp) genome of D. retusa. The total length of cp genome was found to be 170,553 bp, including a large single copy (LSC) region of 84,886 bp, a small single copy (SSC) region of 2,437 bp, and a pair of inverted repeats (IRs) of 41,617 bp. The cp genome of Daphne retusa Hemsl. contains 134 genes, including 90 protein-coding genes (75 PCG species), 37 transfer RNA genes (29 tRNA species), and 6 rRNA genes (3 RNA species). A total of 13 genes (trnK-UUU, trnS-CGA, atpF, rpoC1, trnL-UAA, trnC-ACA, petD, rpl16, rpl2, ndhB, trnE-UUC, ndhA, and trnA-UGC) contain a single intron, and one gene (ycf3) contains two introns. The GC content in whole cp genome, LSC region, SSC region, and IR region was 36.75%, 34.83%, 28.19%, and 38.96% respectively, like other Thymelaeaceae plants. Phylogenetic analysis suggested that D. retusa has a close relationship with congeneric Daphne tangutica.

Keywords: Daphne retusa; Thymelaeaceae; complete chloroplast genome; phylogenetic relationship.

Grants and funding

The authors acknowledge the financial assistance from the Long-yuan Youth Innovation and Entrepreneurship Talent Team Project of Gansu Province [2020RCXM130] and the Gansu Province Higher Education Industry Support and Guidance [2021C-07; 2019C-01].