Characterization of the complete chloroplast genome of Gypsophila huashanensis Y. W. Tsui & D. Q. Lu, an endemic herb species in China

Gypsophila huashanensis Y. W. Tsui & D. Q. Lu (Caryophyllaceae) is an endemic herb species to the Qinling Mountains in China. In this study, we characterized its whole plastid genome using the Illumina sequencing platform. The complete plastid genome of G. huashanensis is 152,457 bp in length, i...

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Published inMitochondrial DNA. Part B. Resources Vol. 8; no. 6; pp. 643 - 647
Main Authors Guan, Tian-Xia, Lu, Zhao-Ping, Liu, Mi-Li, Xun, Lu-Lu, Fang, Min-Feng, Li, Zhong-Hu
Format Journal Article
LanguageEnglish
Published England Taylor & Francis 03.06.2023
Taylor & Francis Ltd
Taylor & Francis Group
Subjects
Amino acid sequence
Caryophyllaceae
Chloroplast genome
Chloroplasts
Complementary DNA
Divergence
Endemic species
Evolution
evolutionary selection
Genomes
Gypsophila
Gypsophila huashanensis
Herbs
Inverted repeat
Nucleotide sequence
phylogenetic relationship
Phylogenetics
Phylogeny
Plastome Announcement
Proteins
rRNA
Site selection
tRNA
China
evolutionary selection
Gypsophila huashanensis
Chloroplast genome
phylogenetic relationship
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Summary:Gypsophila huashanensis Y. W. Tsui & D. Q. Lu (Caryophyllaceae) is an endemic herb species to the Qinling Mountains in China. In this study, we characterized its whole plastid genome using the Illumina sequencing platform. The complete plastid genome of G. huashanensis is 152,457 bp in length, including a large single-copy DNA region of 83,476 bp, a small single-copy DNA region of 17,345 bp, and a pair of inverted repeat DNA sequences of 25,818 bp. The genome contains 130 genes comprising 85 protein-coding genes, 37 tRNA genes, and eight rRNA genes. Evolutionary analysis showed that the non-coding regions of Caryophyllaceae exhibit a higher level of divergence than the exon regions. Gene site selection analysis suggested that 11 coding protein genes (accD, atpF, ndhA, ndhB, petB, petD, rpoCl, rpoC2, rps16, ycfl, and ycf2) have some sites under protein sequence evolution. Phylogenetic analysis showed that G. huashanensis is most closely related to the congeneric species G. oldhamiana. These results are very useful for studying phylogenetic evolution and species divergence in the family Caryophyllaceae.
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Supplemental data for this article can be accessed online at https://doi.org/10.1080/23802359.2023.2220436
ISSN:2380-2359
2380-2359
DOI:10.1080/23802359.2023.2220436