Complete Chloroplast Genome Sequence and Phylogenetic Analysis of the Tibetan Medicinal Plant Soroseris hookeriana

<b>Background/Objectives</b>: <i>Soroseris hookeriana</i>, a Tibetan medicinal plant endemic to the high-altitude Qinghai-Tibet Plateau, possesses significant pharmacological value but lacks fundamental genomic characterization. This study aims to generate and comparatively analyse its complete chloroplast genome. <b>Methods</b>: Total DNA was sequenced, assembled with GetOrganelle, annotated with CPGAVAS2, and compared with eight Asteraceae species; phylogenetic placement was inferred with IQ-TREE from 21 complete plastomes. <b>Results</b>: The circular chloroplast genome is 152,514 bp with a typical quadripartite structure (LSC 84,168 bp, SSC 18,528 bp, two IRs 24,909 bp each). It contains 132 unique genes (87 protein-coding, 37 tRNA, 8 rRNA; 18 duplicated in IRs yield 150 total copies). Twenty-three genes harbour introns; <i>clpP</i> and <i>ycf3</i> have two. Overall GC content is 37.73%, elevated in IRs (43.12%). Codon usage shows strong A/U bias at the third position; 172 SSRs and 39 long repeats are detected. IR-SC boundaries exhibit the greatest inter-specific variation, notably in <i>ycf1</i> and <i>ndhF</i>. <b>Conclusions</b>: The complete plastome robustly supports <i>S. hookeriana</i> and <i>Stebbinsia umbrella</i> as sister species (100% bootstrap) and provides essential genomic resources for species identification, population genetics, and studies of high-altitude adaptation.

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Journal
Genes
Published
2025-12-27
DOI
https://doi.org/10.3390/genes17010024
Citations
1
Primary Topic
Genomics and Phylogenetic Studies
Type
article
Field-Weighted Citation Impact
0.81
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article

Complete Chloroplast Genome Sequence and Phylogenetic Analysis of the Tibetan Medicinal Plant Soroseris hookeriana

Xiuying Lin, Tian Tian, Yiming Wang, Jiuli Wang
1 citations
Genes
Genomics and Phylogenetic Studies
0.81
article

Complete Chloroplast Genome Sequence and Phylogenetic Analysis of the Tibetan Medicinal Plant Soroseris hookeriana

Xiuying Lin, Tian Tian, Yiming Wang, Jiuli Wang
article en
1 citations

Abstract

<b>Background/Objectives</b>: <i>Soroseris hookeriana</i>, a Tibetan medicinal plant endemic to the high-altitude Qinghai-Tibet Plateau, possesses significant pharmacological value but lacks fundamental genomic characterization. This study aims to generate and comparatively analyse its complete chloroplast genome. <b>Methods</b>: Total DNA was sequenced, assembled with GetOrganelle, annotated with CPGAVAS2, and compared with eight Asteraceae species; phylogenetic placement was inferred with IQ-TREE from 21 complete plastomes. <b>Results</b>: The circular chloroplast genome is 152,514 bp with a typical quadripartite structure (LSC 84,168 bp, SSC 18,528 bp, two IRs 24,909 bp each). It contains 132 unique genes (87 protein-coding, 37 tRNA, 8 rRNA; 18 duplicated in IRs yield 150 total copies). Twenty-three genes harbour introns; <i>clpP</i> and <i>ycf3</i> have two. Overall GC content is 37.73%, elevated in IRs (43.12%). Codon usage shows strong A/U bias at the third position; 172 SSRs and 39 long repeats are detected. IR-SC boundaries exhibit the greatest inter-specific variation, notably in <i>ycf1</i> and <i>ndhF</i>. <b>Conclusions</b>: The complete plastome robustly supports <i>S. hookeriana</i> and <i>Stebbinsia umbrella</i> as sister species (100% bootstrap) and provides essential genomic resources for species identification, population genetics, and studies of high-altitude adaptation.

GenesVol. 17(1)
Qinghai University (CN), Qinghai Tibetan Hospital (CN)
Life below water
Openalex Percentile: Top 20%
Genomics and Phylogenetic Studies
0.81
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