ArticleBMC genomics2026
The pan-plastome of Strobilanthes cusia provided new information about the genetic diversity and cultivation history of an important medicinal and natural dye plant.
Article in BMC genomics, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.
What it found
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Who cites it
2 citing papers in PubMed.
- The Pan-Plastome of Walnuts (International journal of molecular sciences · 2026Article
- Comparative genomics on chloroplasts of ChineseFrontiers in plant science · 2026Article
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Authors and funding
7 authors.
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Abstract
backgroundStrobilanthes cusia is a perennial herbaceous plant that is an important medicinal and natural dye plant. The genome of S. cusia has been reported, including the nuclear and chloroplast genomes, but the pan-plastome (pan-plastid genome) that can help our understanding of the intraspecific variation has not yet been studied. Here, the pan-plastome, constructed from different samples collected from diverse locations, is reported for the first time.
resultsSixty-four S. cusia samples were resequenced and assembled in this work, and the published S. cusia genome was downloaded from NCBI and used as a reference. The sizes of the 65 plastomes ranged from 144,107 to 144,174 bp, and the region that had the highest degree of variation was the small single copy, with a coefficient of variation value of 0.03. A total of 101 nucleotide polymorphism sites were identified, comprising 38 insertion and deletion events and 63 single nucleotide variants (SNVs). Additionally, certain group-specific repetitive sequences were discovered, and sample Sc45 contained two SNVs and a unique insertion that resulted in a shortened mutation in one copy of the ndhB gene. Using a number of methods, including phylogenetic tree construction, population structure analysis, and principal component analysis, the population was evidently divided into two clusters, comprising three groups (C1-1, C1-2, and C2). There were 50 samples in group C2, compared to 7 and 8 samples in group C1-1 and group C1-2, respectively. After conducting a haplotype analysis, it was shown that the majority of the 29 samples gathered from Fujian Province, together with a few samples from other provinces, formed a core super haplotype inside group C2. Samples from Yunnan Province made up the majority of the samples in group C1-1 and group C1-2.
conclusionConstruction of the pan-plastome and the analysis of the population structure of S. cusia plastomes provide important resources for our knowledge of S. cusia evolution and its future breeding projects.
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