The complete plastome of Panax stipuleanatus: Comparative and phylogenetic analyses of the genus Panax (Araliaceae)

doi:10.1016/j.pld.2018.11.001

Plant Diversity ›› 2018, Vol. 40 ›› Issue (06): 265-276.DOI: 10.1016/j.pld.2018.11.001

The complete plastome of Panax stipuleanatus: Comparative and phylogenetic analyses of the genus Panax (Araliaceae)

Changkun Liu^a, Zhenyan Yang^a, Lifang Yang^a,b, Junbo Yang^c, Yunheng Ji^a

a Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China;
b School of Life Science, Yunnan University, Kunming 650091, China;
c Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China

收稿日期:2018-07-25 修回日期:2018-11-09 出版日期:2018-12-25 发布日期:2019-01-30
通讯作者: Junbo Yang, Yunheng Ji
作者简介:Changkun Liu,liuchangkun@mail.kib.ac.cn;Zhenyan Yang,yangzhenyan@mail.kib.ac.cn;Lifang Yang,yanglifang@mail.kib.ac.cn
基金资助:
This research was financially supported by the Major Program of National Natural Science Foundation of China (No. 31590823) and the National Natural Science Foundation of China (No. 31070297).

The complete plastome of Panax stipuleanatus: Comparative and phylogenetic analyses of the genus Panax (Araliaceae)

Changkun Liu^a, Zhenyan Yang^a, Lifang Yang^a,b, Junbo Yang^c, Yunheng Ji^a

a Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China;
b School of Life Science, Yunnan University, Kunming 650091, China;
c Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China

Received:2018-07-25 Revised:2018-11-09 Online:2018-12-25 Published:2019-01-30
Contact: Junbo Yang, Yunheng Ji
Supported by:
This research was financially supported by the Major Program of National Natural Science Foundation of China (No. 31590823) and the National Natural Science Foundation of China (No. 31070297).

摘要/Abstract

摘要： Panax stipuleanatus (Araliaceae) is an endangered and medicinally important plant endemic to China. However, phylogenetic relationships within the genus Panax have remained unclear. In this study, we sequenced the complete plastome of P. stipuleanatus and included previously reported Panax plastomes to better understand the relationships between species and plastome evolution within the genus Panax. The plastome of P. stipuleanatus is 156,069 base pairs (bp) in length, consisting of a pair of inverted repeats (IRs, each 25,887 bp) that divide the plastome into a large single copy region (LSC, 86,126 bp) and a small single copy region (SSC, 8169 bp). The plastome contains 114 unigenes (80 protein-coding genes, 30 tRNA genes, and 4 rRNA genes). Comparative analyses indicated that the plastome gene content and order, as well as the expansion/contraction of the IR regions, are all highly conserved within Panax. No significant positive selection in the plastid protein-coding genes was observed across the eight Panax species, suggesting the Panax plastomes may have undergone a strong purifying selection. Our phylogenomic analyses resulted in a phylogeny with high resolution and supports for Panax. Nine proteincoding genes and 10 non-coding regions presented high sequence divergence, which could be useful for identifying different Panax species.

关键词: Araliaceae, Plastome, Comparative genomics, Panax stipuleanatus, Phylogenomics

Abstract: Panax stipuleanatus (Araliaceae) is an endangered and medicinally important plant endemic to China. However, phylogenetic relationships within the genus Panax have remained unclear. In this study, we sequenced the complete plastome of P. stipuleanatus and included previously reported Panax plastomes to better understand the relationships between species and plastome evolution within the genus Panax. The plastome of P. stipuleanatus is 156,069 base pairs (bp) in length, consisting of a pair of inverted repeats (IRs, each 25,887 bp) that divide the plastome into a large single copy region (LSC, 86,126 bp) and a small single copy region (SSC, 8169 bp). The plastome contains 114 unigenes (80 protein-coding genes, 30 tRNA genes, and 4 rRNA genes). Comparative analyses indicated that the plastome gene content and order, as well as the expansion/contraction of the IR regions, are all highly conserved within Panax. No significant positive selection in the plastid protein-coding genes was observed across the eight Panax species, suggesting the Panax plastomes may have undergone a strong purifying selection. Our phylogenomic analyses resulted in a phylogeny with high resolution and supports for Panax. Nine proteincoding genes and 10 non-coding regions presented high sequence divergence, which could be useful for identifying different Panax species.

Key words: Araliaceae, Plastome, Comparative genomics, Panax stipuleanatus, Phylogenomics

Changkun Liu, Zhenyan Yang, Lifang Yang, Junbo Yang, Yunheng Ji. The complete plastome of Panax stipuleanatus: Comparative and phylogenetic analyses of the genus Panax (Araliaceae)[J]. Plant Diversity, 2018, 40(06): 265-276.

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The complete plastome of Panax stipuleanatus: Comparative and phylogenetic analyses of the genus Panax (Araliaceae)

The complete plastome of Panax stipuleanatus: Comparative and phylogenetic analyses of the genus Panax (Araliaceae)

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