Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2024 Jan 11;9(1):100-103.
doi: 10.1080/23802359.2023.2301033. eCollection 2024.

Characterization of the complete chloroplast genome of Gastrochilus sinensis (Orchidaceae, Epidendroideae), a beautiful epiphytic orchid from China

Junyi Zhang  1   2 , Min Liao  2   3 , Bo Xu  2   3 , Hai He  1
Affiliations

Characterization of the complete chloroplast genome of Gastrochilus sinensis (Orchidaceae, Epidendroideae), a beautiful epiphytic orchid from China

Junyi Zhang et al. Mitochondrial DNA B Resour. .

Abstract

Gastrochilus sinensis is a beautiful epiphytic orchid with high ornamental value. In this study, the first complete chloroplast genome sequence of G. sinensis was determined using next-generation sequencing (NGS). The de novo assembled chloroplast genome was 148,020 bp in length, including a pair of inverted repeat regions (IRs; 25,987 bp), a small single-copy region (SSC; 11,045 bp), and a large single-copy region (LSC; 85,001 bp). The chloroplast genome encodes 109 unique genes, including 75 protein-coding genes (PCGs), 30 tRNA genes, and four rRNA genes. The total GC content of the chloroplast genome was 36.8%. The phylogenetic analysis showed a close relationship between G. sinensis and G. formosanus species. The complete chloroplast genome provides fundamental information for genetic diversity and phylogenetic relationships in Gastrochilus.

Keywords: Gastrochilus sinensis; chloroplast genome; phylogeny.

PubMed Disclaimer

Conflict of interest statement

No potential conflict of interest was reported by the author(s).

Figures

Figure 1.
Figure 1.
Flowering plant image of Gastrochilus sinensis (this unpublished photo, taken in Sanjiang, Wenchuan County, Sichuan Province, China by Mr. Yuehong Cheng, is used with permission).
Figure 2.
Figure 2.
The circle map of complete chloroplast genome of Gastrochilus sinensis. The map was generated by CPGView. Genes located on the inner and outer of circle are transcribed clockwise and anticlockwise, respectively. The dark grey inner circle indicates GC content. Large single-copy (LSC), small single-copy (SSC), and inverted repeats (IRA and IRB) are indicated in the inner layer. The functional classification of the genes is provided in the bottom left corner.
Figure 3.
Figure 3.
The ML phylogenetic tree for Gastrochilus sinensis based on 20 chloroplast genomes in Aeridinae. The accession numbers of used sequences follow the species names, and the newly sequenced genome is shown in red font.
See this image and copyright information in PMC

References

    1. Chen SC, Liu ZJ, Zhu GH, Lang KY, Tsi ZH, Lou YB, Jin XH, Cribb PJ, Wood JJ, Gale SW, et al. . 2009. Orchidaceae. In: Wu ZY, Raven PH, Hong DY, editors. Flora of China. Vol. 25. Beijing: Science Press; p. 497.
    1. Cheng YH, Chen YK, Ma J, He T, Zhang JY, Xu B.. 2022. Gastrochilus sinensis, a new record of Orchidaceae species in Sichuan Province, China. J Sichuan For Sci Technol. 43:139–142. doi:10.12172/202201250002. - DOI
    1. Jheng CF, Chen TC, Lin JY, Chen TC, Wu WL, Chang CC.. 2012. The comparative chloroplast genomic analysis of photosynthetic orchids and developing DNA markers to distinguish Phalaenopsis orchids. Plant Sci. 190:62–73. doi:10.1016/j.plantsci.2012.04.001. - DOI - PubMed
    1. Jin JJ, Yu WB, Yang JB, Song Y, dePamphilis CW, Yi TS, Li DZ.. 2020. GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes. Genome Biol. 21(1):241. doi:10.1186/s13059-020-02154-5. - DOI - PMC - PubMed
    1. Katoh K, Standley DM.. 2013. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol. 30(4):772–780. doi:10.1093/molbev/mst010. - DOI - PMC - PubMed