The Complete Chloroplast Genome Sequences of the Medicinal Plant Pogostemon cablin.
Pogostemon cablin, the natural source of patchouli alcohol, is an important herb in the Lamiaceae family. Here, we present the entire chloroplast genome of P. cablin. This genome, with 38.24% GC content, is 152,460 bp in length. The genome presents a typical quadripartite structure with two inverted repeats (each 25,417 bp in length), separated by one small and one large single-copy region (17,652 and 83,974 bp in length, respectively). The chloroplast genome encodes 127 genes, of which 107 genes are single-copy, including 79 protein-coding genes, four rRNA genes, and 24 tRNA genes. The genome structure, GC content, and codon usage of this chloroplast genome are similar to those of other species in the family, except that it encodes less protein-coding genes and tRNA genes. Phylogenetic analysis reveals that P. cablin diverged from the Scutellarioideae clade about 29.45 million years ago (Mya). Furthermore, most of the simple sequence repeats (SSRs) are short polyadenine or polythymine repeats that contribute to high AT content in the chloroplast genome. Complete sequences and annotation of P. cablin chloroplast genome will facilitate phylogenic, population and genetic engineering research investigations involving this particular species.
State Key Laboratory Breeding Base of Systematic Research, Development and Utilization of Chinese Medicine Resources, Chengdu University of Traditional Chinese Medicine, Chengdu 611137, China. hawkheyang@163.com.
Yang
Y
He
School of Medicine, University of Electronic Science and Technology of China, Chengdu 610072, China. xht927@163.com.|Department of Pharmacy, Hospital of the University of Electronic Science and Technology of China and Sichuan Provincial People's Hospital, Chengdu 610072, China. xht927@163.com.
Hongtao
H
Xiao
Department of Bioinformatics, DNA Stories Bioinformatics Center, Chengdu 611731, China. brentcaodeng@gmail.com.
Cao
C
Deng
State Key Laboratory Breeding Base of Systematic Research, Development and Utilization of Chinese Medicine Resources, Chengdu University of Traditional Chinese Medicine, Chengdu 611137, China. xiling0505@126.com.
Liang
L
Xiong
Department of Bioinformatics, DNA Stories Bioinformatics Center, Chengdu 611731, China. yangjian@dnastories.com.
Jian
J
Yang
State Key Laboratory Breeding Base of Systematic Research, Development and Utilization of Chinese Medicine Resources, Chengdu University of Traditional Chinese Medicine, Chengdu 611137, China. tcmpengcheng@163.com.
Cheng
C
Peng
D019295:Computational Biology / Q000379:methods; D019143:Evolution, Molecular; D054628:Genome, Chloroplast; D059014:High-Throughput Nucleotide Sequencing; D018895:Microsatellite Repeats; D058977:Molecular Sequence Annotation; D010802:Phylogeny; D010946:Plants, Medicinal / Q000235:genetics*; D000070177:Pogostemon / Q000145:classification / Q000235:genetics*; D017422:Sequence Analysis, DNA
Pogostemon cablin; SSR; chloroplast genome; phylogenetic analysis; sequencing