Complete chloroplast genome of Clematis taeguensis (Ranunculaceae), an endemic species from South Korea

Park, Beom Kyun; Ghimire, Balkrishna; Ha, Young‐Ho; Son, Dong Chan; Kim, Dong-Kap

doi:10.1080/23802359.2021.1910080

Cited by 5 publications

(7 citation statements)

References 10 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Recently, three species of the Korean Clematis have been reported (Choi et al, 2021;Park et al, 2021). The results of this study will provide important basic information for future phylogenetic and evolutionary studies of Clematis and Ranunculaceae by adding one species to them.…”

Section: Category For Genesmentioning

confidence: 77%

Complete chloroplast genome sequence of Clematis calcicola (Ranunculaceae), a species endemic to Korea

Park

JANG

Son

et al. 2022

Korean J. Pl. Taxon

View full text Add to dashboard Cite

The complete chloroplast genome (cp genome) sequence of Clematis calcicola J. S. Kim (Ranunculaceae) is 159,655 bp in length. It consists of large (79,451 bp) and small (18,126 bp) single-copy regions and a pair of identical inverted repeats (31,039 bp). The genome contains 92 protein-coding genes, 36 transfer RNA genes, eight ribosomal RNA genes, and two pseudogenes. A phylogenetic analysis based on the cp genome of 19 taxa showed high similarity between our cp genome and data published for C. calcicola, which is recognized as a species endemic to the Korean Peninsula. The complete cp genome sequence of C. calcicola reported here provides important information for future phylogenetic and evolutionary studies of Ranunculaceae.

show abstract

Section: Category For Genesmentioning

confidence: 77%

Complete chloroplast genome sequence of Clematis calcicola (Ranunculaceae), a species endemic to Korea

Park

JANG

Son

et al. 2022

Korean J. Pl. Taxon

View full text Add to dashboard Cite

show abstract

“…7), such as C. fruticosa [43], C. canescens [25], C. henryi var. ternate [6], C. guniuensis [18], C. terni ora [24], C. taeguensis [30], C. henryi [38], and others [41,8]. The result of this study provides meaningful information for the phylogenetic research of the Ranunculaceae in the future.…”

Section: Discussionmentioning

confidence: 91%

Characterization of the complete chloroplast genome and evolutionary position of Clematis tomentella (Ranunculaceae)

Liu

Wang

Tian

et al. 2023

Preprint

View full text Add to dashboard Cite

Background Clematis tomentella 2001 (Ranunculaceae) is a typical drought-tolerant and sand-fixing plant in the desert ecosystem of northwest China. To elucidate the phylogenetic status of C. tomentella and its related species, we determined the complete chloroplast (cp) genome of C. tomentellaand analyzed their interspecific relationships. Methods and results The complete cp genome sequence of C. tomentella was performed in this study. The result suggested that the cp genome of C. tomentella was 159,816 bp in length, including two inverted repeats of 31,045 bp, a large single copy of 79,535 bp, and a small single copy of 18,191 bp. 136 genes were annotated across the whole cp genome, including 92 protein-coding genes, 8 rRNA genes, and 36 tRNA genes, as well as the GC content accounted for 38%. Crucially, we found that the sequencing regions of psbE-petL, trnG_UCC-atpA, ndhF-rpl32, and rps8-infA were highlydivergent, which could be marked as DNA barcodes for the identification of C. tomentella in Ranunculaceae. A maximum likelihood phylogenetic tree revealed that C. tomentella was closely related to C. fruticosa. Conclusions Our results filled the gap in cp genome sequence of C. tomentella, elucidating the taxonomic evolutionary position and relationship among Clematis. It provides the references and implications for the phylogenetic study of Clematis in Ranunculaceae in the future.

show abstract

“…In this study, the Ka/Ks of most genes in C. nannophylla was less than 1 compared to that of the other four plants, indicating that puri cation selection played an important role in the cp genomes of the ve Clematis species. However, only the Ka/Ks of the ycf1 (C. nannophylla and C. orida) genes was greater than 1, indicating that the ycf1 gene was selected to adapt to the living environment; ycf1 was also positively selected in previous studies [33]. The ycf1 gene, the largest gene in cp and the most potential cp DNA barcode encodes the ATP-binding (ABC) protein in cp.…”

Section: Adaptive Evolution Analysis Of the Cp Genome Of C Nannophyllamentioning

confidence: 93%

“…Simple sequence repeats (SSR) usually consist of 1-6 nucleotide repeating units and have been recognised as important molecular markers in the study of population variation [33,34]. Since genetic information in the cp genome is inherited only from the maternal progenitor, SSR in the cp genome are sensitive to population genetic effects [35] and have been widely used in the study of population evolution and polymorphism [36].…”

Section: Cp Genome Repeat Sequence Of C Nannophyllamentioning

confidence: 99%

Phylogenomic Analysis and Dynamic Evolution of Chloroplast Genomes of Clematis nannophylla

Qin

Liu

Wang

2023

Preprint

View full text Add to dashboard Cite

Background Clematis nannophylla is a small perennial shrub of Clematis with a high ecological, ornamental, and medicinal value and is distributed in the arid and semi-arid areas of northwest China. In this study, we successfully determined the complete chloroplast genome of C. nannophylla and reconstructed a phylogenetic tree of Clematis.Results The chloroplast genome of C. nannophylla was 159801 bp in length, including a large single-copy (LSC,79526bp), a small single-copy (SSC,18185bp), and a pair of reverse repeats(IRa and IRb,31045bp). The C. nannophylla cp genome contained 133 unique genes, including 89 protein-coding genes, 36 tRNA genes, and eight rRNA genes. In addition, 61 codons and 66 simple repeat sequences (SSR) were identified, of which 50 dispersed repeats (including 22 forward, 21 palindromic and 7 reverse) and 24 tandem repeats were found in C. nannophylla. Many of the dispersed and tandem repeats were between 20–30 bp and 10–20 bp, respectively. The chloroplast genome of C. nannophylla was relatively conserved, especially in the IR region, where no inversion or rearrangement was observed. The six regions with the largest variations were trnF-ndhJ, ndhE-ndhG, ndhF-rpl32, ccsA-ndhD, ccsA, and ndhD (Pi > 0.008), which were distributed in the LSCS and SSCs. A comparison of gene selection pressures indicated that purification was the main mode of selection for maintaining important biological functions in the chloroplast genome of C. nannophylla. However, to adapt to the living environment, ycf1 was positively selected (C. nannophylla and C. florida). Phylogenetic analysis showed that C. nannophylla was more closely related to C. fruticosa and C. songorica.Conclusions Our analysis of the C. nannophylla cp genome provides reference data for molecular marker development, phylogenetic analysis, population studies, and chloroplast genome processes, as well as for better exploitation and utilisation of C. nannophylla.

show abstract

Complete chloroplast genome of Clematis taeguensis (Ranunculaceae), an endemic species from South Korea

Cited by 5 publications

References 10 publications

Complete chloroplast genome sequence of <i>Clematis calcicola</i> (Ranunculaceae), a species endemic to Korea

Complete chloroplast genome sequence of <i>Clematis calcicola</i> (Ranunculaceae), a species endemic to Korea

Characterization of the complete chloroplast genome and evolutionary position of Clematis tomentella (Ranunculaceae)

Phylogenomic Analysis and Dynamic Evolution of Chloroplast Genomes of Clematis nannophylla

Contact Info

Product

Resources

About