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Article

Comparative Analysis of the Complete Plastid Genome of Five Bupleurum Species and New Insights into DNA Barcoding and Phylogenetic Relationship

by
Jun Li
,
Deng-Feng Xie
,
Xian-Lin Guo
,
Zhen-Ying Zheng
,
Xing-Jin He
* and
Song-Dong Zhou
*
Key Laboratory of Bio-Resources and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China
*
Authors to whom correspondence should be addressed.
Plants 2020, 9(4), 543; https://doi.org/10.3390/plants9040543
Submission received: 15 March 2020 / Revised: 18 April 2020 / Accepted: 19 April 2020 / Published: 22 April 2020
(This article belongs to the Special Issue Plant Molecular Phylogenetics and Evolutionary Genomics)
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Abstract

Bupleurum L. (Apiaceae) is a perennial and herbal genus, most species of which have high medicinal value. However, few studies have been performed using plastome data in this genus, and the phylogenetic relationships have always been controversial. In this study, the plastid genomes of Bupleurum chinense and Bupleurum commelynoideum were sequenced, and their gene content, order, and structure were counted and analyzed. The only three published Bupleurum species (B. boissieuanum, B. falcatum, and B. latissimum) and other fifteen allied species were selected to conduct a series of comparative and phylogenetic analyses. The genomes of B. chinense and B. commelynoideum were 155,869 and 155,629 bp in length, respectively, both of which had a typical quadripartite structure. The genome length, structure, guanine and cytosine (GC) content, and gene distribution were highly similar to the other three Bupleurum species. The five Bupleurum species had nearly the same codon usages, and eight regions (petN-psbM, rbcL-accD, ccsA-ndhD, trnK(UUU)-rps16, rpl32-trnL(UAG)-ccsA, petA-psbJ, ndhF-rpl32, and trnP(UGG)-psaJ-rpl33) were found to possess relatively higher nucleotide diversity, which may be the promising DNA barcodes in Bupleurum. Phylogenetic analysis revealed that all Bupleurum species clustered into a monophyletic clade with high bootstrap support and diverged after the Chamaesium clade. Overall, our study provides new insights into DNA barcoding and phylogenetic relationship between Bupleurum and its related genera, and will facilitate the population genomics, conservation genetics, and phylogenetics of Bupleurum in Apiaceae.
Keywords: Apiaceae; Bupleurum; plastid genome; comparative analysis; phylogeny; DNA barcoding Apiaceae; Bupleurum; plastid genome; comparative analysis; phylogeny; DNA barcoding

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MDPI and ACS Style

Li, J.; Xie, D.-F.; Guo, X.-L.; Zheng, Z.-Y.; He, X.-J.; Zhou, S.-D. Comparative Analysis of the Complete Plastid Genome of Five Bupleurum Species and New Insights into DNA Barcoding and Phylogenetic Relationship. Plants 2020, 9, 543. https://doi.org/10.3390/plants9040543

AMA Style

Li J, Xie D-F, Guo X-L, Zheng Z-Y, He X-J, Zhou S-D. Comparative Analysis of the Complete Plastid Genome of Five Bupleurum Species and New Insights into DNA Barcoding and Phylogenetic Relationship. Plants. 2020; 9(4):543. https://doi.org/10.3390/plants9040543

Chicago/Turabian Style

Li, Jun, Deng-Feng Xie, Xian-Lin Guo, Zhen-Ying Zheng, Xing-Jin He, and Song-Dong Zhou. 2020. "Comparative Analysis of the Complete Plastid Genome of Five Bupleurum Species and New Insights into DNA Barcoding and Phylogenetic Relationship" Plants 9, no. 4: 543. https://doi.org/10.3390/plants9040543

APA Style

Li, J., Xie, D.-F., Guo, X.-L., Zheng, Z.-Y., He, X.-J., & Zhou, S.-D. (2020). Comparative Analysis of the Complete Plastid Genome of Five Bupleurum Species and New Insights into DNA Barcoding and Phylogenetic Relationship. Plants, 9(4), 543. https://doi.org/10.3390/plants9040543

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