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The complete chloroplast genome of Tetradoxa omeiensis (Adoxaceae) provides insights into the phylogenetic relationship of Adoxaceae.

ABSTRACT: The complete chloroplast genome of Tetradoxa omeiensis, which is endemic and endangered to the Hengduan Mountains, was sequenced and characterized in this study. The chloroplast genome is 157,502?bp in length, and it is consisted of four distinct regions: a large single-copy region (LSC, 86,526?bp), a small single-copy region (SSC, 18,682?bp) and a pair of inverted repeat regions (IRs, 26,147?bp). A total of 134 genes were annotated, including 86 protein-coding genes (80 PCG species), 40 tRNA genes (33 tRNA species) and 8 ribosomal RNA genes (4 rRNA species). We also reconstructed a comprehensive phylogenetic relationship of the family Adoxaceae, which demonstrated that the three Adoxaceae species clustered into two well-supported clades, and T. omeiensis is most closely related to the Adoxa moschatellina.

SUBMITTER: Wang Y

PROVIDER: S-EPMC7800847 | biostudies-literature | 2018 Oct

REPOSITORIES: biostudies-literature

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The complete chloroplast genome of <i>Tetradoxa omeiensis</i> (Adoxaceae) provides insights into the phylogenetic relationship of Adoxaceae.

Wang Yaling Y Yang Xiaoyue X Wang Zefu Z Chen Hong H Zhang Guohua G Chen Li L

Mitochondrial DNA. Part B, Resources 20181012 2

The complete chloroplast genome of <i>Tetradoxa omeiensis</i>, which is endemic and endangered to the Hengduan Mountains, was sequenced and characterized in this study. The chloroplast genome is 157,502 bp in length, and it is consisted of four distinct regions: a large single-copy region (LSC, 86,526 bp), a small single-copy region (SSC, 18,682 bp) and a pair of inverted repeat regions (IRs, 26,147 bp). A total of 134 genes were annotated, including 86 protein-coding genes (80 PCG species), 40 ...[more]

PMID: 33474447

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Project description:Buckwheat (Fagopyrum genus, Polygonaceae), is an annual or perennial, herbaceous or semi-shrub dicotyledonous plant. There are mainly three cultivated buckwheat species, common buckwheat (Fagopyrum esculentum) is widely cultivated in Asia, Europe, and America, while Tartary buckwheat (F. tataricum) and F. cymosum (also known as F. dibotrys) are mainly cultivated in China. The genus Fagopyrum is taxonomically confusing due to the complex phenotypes of different Fagopyrum species. In this study, the chloroplast (cp) genomes of three Fagopyrum species, F. longistylum, F. leptopodum, F. urophyllum, were sequenced, and five published cp genomes of Fagopyrum were retrieved for comparative analyses. We determined the sequence differentiation, repeated sequences of the cp genomes, and the phylogeny of Fagopyrum species. The eight cp genomes ranged, gene number, gene order, and GC content were presented. Most of variations of Fagopyrum species cp genomes existed in the LSC and SSC regions. Among eight Fagopyrum chloroplast genomes, six variable regions (ndhF-rpl32, trnS-trnG, trnC, trnE-trnT, psbD, and trnV) were detected as promising DNA barcodes. In addition, a total of 66 different SSR (simple sequence repeats) types were found in the eight Fagopyrum species, ranging from 8 to 16 bp. Interestingly, many SSRs showed significant differences especially in some photosystem genes, which provided valuable information for understanding the differences in light adaptation among different Fagopyrum species. Genus Fagopyrum has shown a typical branch that is distinguished from the Rumex, Rheum, and Reynoutria, which supports the unique taxonomic status in Fagopyrum among the Polygonaceae. In addition, phylogenetic analysis based on the cp genomes strongly supported the division of eight Fagopyrum species into two independent evolutionary directions, suggesting that the separation of cymosum group and urophyllum group may be earlier than the flower type differentiation in Fagopyrum plants. The results of the chloroplast-based phylogenetic tree were further supported by the matK and Internal Transcribed Spacer (ITS) sequences of 17 Fagopyrum species, which may help to further anchor the taxonomic status of other members in the urophyllum group in Fagopyrum. This study provides valuable information and high-quality cp genomes for identifying species and evolutionary analysis for future Fagopyrum research.

Dataset Information

The complete chloroplast genome of Tetradoxa omeiensis (Adoxaceae) provides insights into the phylogenetic relationship of Adoxaceae.

Publications

The complete chloroplast genome of <i>Tetradoxa omeiensis</i> (Adoxaceae) provides insights into the phylogenetic relationship of Adoxaceae.

Similar Datasets

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