The complete chloroplast genome sequence of Goodyera schlechtendaliana in Korea (Orchidaceae)

Abstract

Goodyera schlechtendaliana is a common orchid species in East Asia, providing a case to study phylogeographic structure of understory plants in warm temperate forests. Here, we present the complete chloroplast genome of the Korean G. schlechtendaliana. Its length is 153,801 bp and it has four subregions; 82,683 bp of large-single-copy and 18,048 bp of small-single-copy regions are separated by 26,535 bp of inverted repeat regions, including 133 genes (86 protein-coding genes, eight rRNAs, and 39 tRNAs). Phylogenetic analyses suggest that the chloroplast genomic data should be useful in future phylogeographic and phylogenetic studies of Goodyera. ARTICLE HISTORY

The complete chloroplast genomes of two cold hardness coffee trees, Coffea arabica L. (Rubiaceae)

“…CH1 and CH2 chloroplast genomes have six insertions and deletions (INDELs) against CH3, another cold hardness coffee ) and two INDELs against TY1 chloroplast. It is similar to those of Camellia japonica (Park, Kim, Xi, Oh, et al 2019b), Cucumis melo (Zhu et al 2016), Chenopodium quinoa (Maughan et al 2019), Abeliophyllum distichum , Salix koriyanagi , Populus alba x Populus glandulosa , and Marchantia polymorpha (4 SNPs; Kwon et al 2019) and smaller than those of other chloroplasts of Pyrus ussuriensis (Cho et al 2019), Pseudostellaria palibiniana , Aconitum coreanum (Kim, Yi, et al 2019), Artemisia fukudo , Goodyera schlechtendaliana (Oh et al 2019), Dysphania pumilio , Nymphaea alba (Park, Kim, Kwon, Nam, et al 2019), Liriodendron tulifipera , Duchesnea chrysantha (Park, Kim, Lee 2019), Illicium anisatum , Salix koriyanagi , Viburnum erosum (Choi et al, 2020), Abeliophyllum distichum , and Camellia japonica (Park, Kim, Xi, Oh et al 2019a).…”

The complete chloroplast genome of Euscaphis japonica (Thunb.) Kanitz (Staphyleaceae) isolated in Korea

“…Based on pairwise alignment with the chloroplast of E. japonica from China (MN159078), 424 SNPs (0.26%) and 809 INDELs (0.50%) were identified, displaying relatively large amount of intraspecific variations: larger than those of Pyrus ussuriensis (Cho et al 2019), Agrimonia pilosa (Heo et al 2020), Camellia japonica (Park et al 2019b), and Marchantia polymorpha (Kwon et al 2019). However, it is less than those of Goodyera schlechtendaliana (844 SNPs and 2045 INDELs; Oh et al 2019bOh et al , 2019a and Gastrodia elata (493 SNPs and 650 INDELs; Kang et al 2020;Park et al 2020) from Orchidaceae. Our chloroplast genome displays that direction of both LSC and SSC is reversely oriented compared with the chloroplast from China (MN159078), showing a structural variation within a species (Park et al 2019a;Xi et al 2019).…”

The complete chloroplast genome sequence of Viburnum erosum (Adoxaceae)

“…There are 18 single nucleotide polymorphisms (SNPs) and 36 insertions and deletions (INDELs) between V. erosum and V. japonicum, which is similar level between Salix gracilistyla and Salix koriyanagi (Xi et al 2019). The levels of variation between the two Viburnum species is much lower than those of infraspecific variations found in other species, such as Pseudostellaria palibiniana ( Oh et al 2019). This study suggests that the rate of evolution of chloroplast genomes of V. erosum is slow.…”