Comparative phylogenetic analysis of oolong tea (Phoenix Dancong tea) using complete chloroplast genome sequences

Lin, Min; Lin, Liwu; Yang, Dongjuan; Zou, Xianghui; Zhang, Zhenxia; Liu, Mouquan; Lin, Min; Zheng, Yuzhong

doi:10.1016/j.heliyon.2022.e12557

Cited by 6 publications

(2 citation statements)

References 54 publications

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“…Also applying NGS method, the oolong tea (Phoenix dancong) from China was detected with a complicated genetic relationship with different tea species in the genus Camellia. Among 75 complete cp genomes, cp genomes of five Fujian oolong tea species are most similar to that of Phoenix dancong and form a monophyletic cluster (Liu et al 2022). These results prove invaluable effectiveness of NGS in determining the origin and classification of plants which could facilitate the effective utilization and management of plant's genetic resources.…”

Section: Resultsmentioning

confidence: 81%

The initial complete chloroplast genome of Ludisia discolor in Vietnam

2023

Nusantara Biosci

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The medicinal plant Ludisia discolor has been highly valued for its effectiveness in treating various diseases. To better understand its genetic makeup, the complete chloroplast genome (cp) of this plant from Vietnam was sequenced, annotated, and compared with published cp genomes. The results of this study revealed that the complete cp genome of L. discolor is 151,876 bp in size consisting of 96 protein coding genes, 12 rRNA and 33 tRNA genes. Total 53 simple sequence repeats were detected in this genome, most of them are polyA and polyT. Genomic comparisons revealed significant differences between the cp genomes of L. discolor from Vietnam with other accessions from China. These findings could provide valuable insights for the taxonomy, plant identification, breeding, and conservation programs of L. discolor in Vietnam.

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Section: Resultsmentioning

confidence: 81%

The initial complete chloroplast genome of Ludisia discolor in Vietnam

2023

Nusantara Biosci

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“…This may be caused by certain duplicated genes within the IR region preventing mutations from occurring [40]. Some of these rare SSR loci as well as highly variable regions can be used as potential molecular markers in the fields of intraspecific genetic variation, population identification, species evolution, and phylogenetic studies in plants, e.g., rps8, rpl16, PsbE-petL, and ndhF-rpl32 have been demonstrated to be useful in Phoenix dancong (Camellia sinensis) [41], Oryza sativa (Gramineae) [42], and some Lauraceae plants (Machilus yunnanensis, Machilus balansae) [43] in terms of population identification and phylogenetic analyses, demonstrating high levels of resolution.…”

Section: Chloroplast Genomic Characteristics and Sequence Variation I...mentioning

confidence: 99%

Complete Chloroplast Genomes of Saussurea katochaete, Saussurea superba, and Saussurea stella: Genome Structures and Comparative and Phylogenetic Analyses

He,

Wang,

Tang

et al. 2023

Genes

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Saussurea plants are widely distributed in Asia and Europe; however, their complex phylogenetic relationships have led to many difficulties in phylogenetic studies and interspecific identification. In this study, we assembled, annotated, and analyzed the chloroplast genomes of three Saussurea plants: Saussurea katochaete, Saussurea superba, and Saussurea stella. The results showed that the full-length sequences of the three Saussurea plants were 152,561 bp, 151,452 bp, and 152,293 bp, respectively, which represent the typical quadripartite structure, and the genomes were relatively conserved. The gene annotation results showed that the chloroplast genomes of S. katochaete, S. superba, and S. stella were annotated with 128, 124, and 127 unique genes, respectively, which included 83, 80, and 83 protein-coding genes (PCGs), respectively, 37, 36, and 36 tRNA genes, respectively, and 8 rRNA genes. Moreover, 46, 45, and 43 SSR loci, respectively, and nine highly variable regions (rpl32-trnL-UAG, rpl32, ndhF-rpl32, ycf1, trnC-GCA-petN, trnC-GCA, rpcL, psbE-petL, and rpl16-trnG-UUG) were identified and could be used as potential molecular markers for population identification and phylogenetic study of Saussurea plants. Phylogenetic analyses strongly support the sisterhood of S. katochaete with S. superba and S. stella, and are all clustered with S. depsagensis, S. inversa, S. medusa, and S. gossipihora, of which S. gossipiphora is most closely related. Additionally, the phylogenetic results indicate a high frequency of differentiation among different species of Saussurea plants, and many different species or genera are morphologically very different from each other, which may be related to certain genetic material in the chloroplasts. This study provides an important reference for the identification of Saussurea plants and studies their evolution and phylogenetics.

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Tea Plant Chloroplast and Mitochondrial Genome

Qiao

2024

Concepts and Strategies in Plant Sciences

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Comparative phylogenetic analysis of oolong tea (Phoenix Dancong tea) using complete chloroplast genome sequences

Cited by 6 publications

References 54 publications

The initial complete chloroplast genome of Ludisia discolor in Vietnam

The initial complete chloroplast genome of Ludisia discolor in Vietnam

Complete Chloroplast Genomes of Saussurea katochaete, Saussurea superba, and Saussurea stella: Genome Structures and Comparative and Phylogenetic Analyses

Tea Plant Chloroplast and Mitochondrial Genome

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