ArticleBMC evolutionary biology2019
Evolution of plastid genomes of Holcoglossum (Orchidaceae) with recent radiation.
Article in BMC evolutionary biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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35 citing papers in PubMed.
- The Complete Chloroplast Genome ofGenes · 2026Article
- Elucidation of the phylogeny of Cucurbitaceae, particularly Trichosanthes, based on plastome data and nuclear single-copy genes.BMC plant biology · 2025Article
- Orchid phylogenetics and evolution: history, current status and prospects.Annals of botany · 2025Review
- Comparative plastome analyses and phylogenetic insights of Elatostema.BMC plant biology · 2025Article
- The complete chloroplast genome sequences of three Cypripedium species and their phylogenetic analysis.Scientific reports · 2025Article
- Distribution Dynamics of Wide-Ranged and Narrow-Ranged Species From the Pliocene to the Future: Insights From Asian EndemicEcology and evolution · 2025Article
- Plastome Evolution and Comparative Analyses of a Recently Radiated GenusInternational journal of molecular sciences · 2024Article
- Comparative Analysis ofGenes · 2023Article
- Comparative and phylogenetic analysis of Chiloschista (Orchidaceae) species and DNA barcoding investigation based on plastid genomes.BMC genomics · 2023Article
- Assessing the phylogenetic relationship among varieties ofEcology and evolution · 2023Article
- Characterization and Comparative Analysis of the Complete Plastomes of FiveInternational journal of molecular sciences · 2023Article
- Ancient Horizontal Gene Transfers from Plastome to Mitogenome of a Nonphotosynthetic Orchid,International journal of molecular sciences · 2023Article
- Complete Chloroplast Genomes and Comparative Analyses of ThreeInternational journal of molecular sciences · 2023Article
- Habitat-related plastome evolution in the mycoheterotrophic Neottia listeroides complex (Orchidaceae, Neottieae).BMC plant biology · 2023Article
- Complete chloroplast genome of a traditional medicinal plantMitochondrial DNA. Part B, Resources · 2023Article
- Five new and noteworthy species of Epidendroideae (Orchidaceae) from southwestern China based on morphological and phylogenetic evidence.PhytoKeys · 2023Article
- The extremely reduced, diverged and reconfigured plastomes of the largest mycoheterotrophic orchid lineage.BMC plant biology · 2022Article
- Strong plastid degradation is consistent within sectionEcology and evolution · 2022Article
- The Gastrodia menghaiensis (Orchidaceae) genome provides new insights of orchid mycorrhizal interactions.BMC plant biology · 2022Article
- Structural characterization of Platanthera ussuriensis chloroplast genome and comparative analyses with other species of Orchidaceae.BMC genomics · 2022Article
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6 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundThe plastid is a semiautonomous organelle with its own genome. Plastid genomes have been widely used as models for studying phylogeny, speciation and adaptive evolution. However, most studies focus on comparisons of plastid genome evolution at high taxonomic levels, and comparative studies of the process of plastome evolution at the infrageneric or intraspecific level remain elusive. Holcoglossum is a small genus of Orchidaceae, consisting of approximately 20 species of recent radiation. This made it an ideal group to explore the plastome mutation mode at the infrageneric or intraspecific level.
resultsIn this paper, we reported 15 complete plastid genomes from 12 species of Holcoglossum and 1 species of Vanda. The plastid genomes of Holcoglossum have a total length range between 145 kb and 148 kb, encoding a set of 102 genes. The whole set of ndh-gene families in Holcoglossum have been truncated or pseudogenized. Hairpin inversion in the coding region of the plastid gene ycf2 has been found.
conclusionsUsing a comprehensive comparative plastome analysis, we found that all the indels between different individuals of the same species resulted from the copy number variation of the short repeat sequence, which may be caused by replication slippage. Annotation of tandem repeats shows that the variation introduced by tandem repeats is widespread in plastid genomes. The hairpin inversion found in the plastid gene ycf2 occurred randomly in the Orchidaceae.
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