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. 2022 Mar 15;7(3):501–502. doi: 10.1080/23802359.2022.2051760

Characterization of the complete chloroplast genome of Fibraurea recisa Pierre 1885 (Menispermaceae), an important medicinal herb from Yunnan, China

Lan-Ping Zheng 1,✉, Rui Feng 1
PMCID: PMC8928798  PMID: 35311209

Abstract

Fibraurea recisa Pierre 1885, which belongs to the family Menispermaceae, is an important medicinal herb in Yunnan, China. Despite its importance, genetic studies on this species remain rare. Therefore, in the current study, we assembled the complete chloroplast genome of F. recisa. Results showed that the complete genome was 161,671 bp in length, including a large single-copy region (LSC, 91,071 bp), small single-copy region (SSC, 20,858 bp), and two inverted repeat regions (IRa and IRb, 24,871 bp). The genome consisted of 124 genes, including 87 protein-coding genes, 29 tRNA genes, and eight rRNA genes. Phylogenetic analysis indicated that F. recisa was most closely related to species of Tinospora within Menispermaceae. Our complete chloroplast genome of F. recisa should contribute to the genetic resource assessment of this species as well as its future conservation and utilization.

Keywords: Illumina sequencing, phylogenetic analysis, Menispermaceae

Fibraurea recisa Pierre 1885 is a member of the family Menispermaceae and is an important medicinal herb in Yunnan, China (Gao et al. 2005). The active ingredient in F. recisa exhibits extensive anti-inflammatory and antibacterial effects (Zhu 2006). Thus far, studies on F. recisa have focused on the pharmacology and isolation of chemical compounds, while molecular studies remain scarce (Zhu 2006; Wang et al. 2014). Therefore, to promote the conservation and utilization of the genetic resources of this species, we assembled the first complete chloroplast genome of F. recisa.

We sampled several F. recisa plants from Pingbian, Yunnan, China (23°01′55″ N, 103°44′53″ E), and deposited a voucher specimen in Yunnan University of Chinese Medicine (L-P Zheng, casperlp@126.com) (specimen number YUCM2020F004). Total genomic DNA was extracted from fresh leaves using CTAB method, and the purified genomic DNA library was constructed and sequenced using the Illumina NovaSeq 6000 Platform (Benagen Tech Solution Co., Ltd, Wuhan, China). The genome was assembled using SPAdes v3.6.1 (Bankevich et al. 2012) and sequence annotation was conducted with GeSeq (Tillich et al. 2017).

The complete chloroplast genome of F. recisa was 161,671 bp in length, including a large single-copy region (LSC, 91,071 bp), small single-copy region (SSC, 20,858 bp), and two inverted repeat regions (IRa and IRb, 24,871 bp). The complete chloroplast genome showed a typical quadripartite structure, consistent with that of most angiosperm chloroplast genomes. The chloroplast genome consisted of 124 genes, including 87 protein-coding genes, 29 tRNA genes, and eight rRNA genes, with a GC content of 37.76%.

To examine the phylogenetic relationships, phylogenetic analysis was performed based on the chloroplast genomes of F. recisa and 14 related species (Figure 1). Sequences were aligned using MAFFT v7 (Katoh and Standley 2013), and a maximum-likelihood (ML) tree was constructed using IQ-TREE with 5 000 ultrafast bootstraps (Nguyen et al. 2015). Results showed that F. recisa formed a sister clade to the species of Tinospora, and formed another sister clade to Menispermum, Sinomenium, Pericampylus, and Stephania within Menispermaceae, with 100% support (Figure 1). Thus, our results indicated that Fibraurea was most closely related to the species of Tinospora, generally consistent with previous studies (Wang et al. 2017). Our complete chloroplast genome of F. recisa should contribute to the genetic resource assessment of this species as well as its conservation and utilization in the future.

Figure 1.

Figure 1.

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Phylogenetic tree of Fibraurea recisa and 14 related species based on complete chloroplast genomes. Nodal numbers are ML bootstrap values.

Author contributions

ZLP designed the study, ZLP and FR analyzed the data, ZLP prepared and revised the manuscript. All authors have read and agreed to the published version of the manuscript.

Ethics statement

This study did not require any ethical or institutional approvals according to “Wild Plants Protection Regulations of the People's Republic of China” and “Wild Medicinal Materials Resources Protection Regulations of the People's Republic of China”, because this species is not in the list of the protected plants or medicinal materials of China and the sampling was conducted outside reserves.

Funding Statement

This work was supported by the Yunnan Key Laboratory of Southern Medicinal Resource [202005AG070157], Department of Science and Technology of Yunnan Province Joint Special Project of Traditional Chinese Medicine [202101AZ070001-056] and Yunnan Provincial Education Department Science Research Foundation [2019J1060].

Disclosure statement

No potential conflicts of interest are reported by the authors.

Data availability statement

The genome sequence data of this study are openly available in GenBank of NCBI (https://www.ncbi.nlm.nih.gov/) under accession no. OK539642. The associated Bio-Project, Bio-Sample, and SRA numbers are PRJNA748215, SAMN20309845, and SRR15214094, respectively.

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Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Data Availability Statement

The genome sequence data of this study are openly available in GenBank of NCBI (https://www.ncbi.nlm.nih.gov/) under accession no. OK539642. The associated Bio-Project, Bio-Sample, and SRA numbers are PRJNA748215, SAMN20309845, and SRR15214094, respectively.

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