ArticleFrontiers in plant science2022
Orchid Phylotranscriptomics: The Prospects of Repurposing Multi-Tissue Transcriptomes for Phylogenetic Analysis and Beyond.
Article in Frontiers in plant science, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Phylotranscriptomics Allows Distinguishing Major Gene Flow Events from Incomplete Lineage Sorting in Rapidly Diversifying Mimetic Orchids (Genus Ophrys).Genome biology and evolution · 2026Article
- Orchid genome evolution and trait innovation.Journal of integrative plant biology · 2026Review
- Interhaplotype Inversions and Repeat Expansion in the Sexually Deceptive Orchid Chiloglottis trapeziformis.Genome biology and evolution · 2026Article
- Herbaria provide a valuable resource for obtaining informative mRNA.Genome research · 2026Article
- Mycoheterotrophy and plastid genome evolution in the early-diverging epidendroid orchid tribe Nervilieae: independent transitions inAoB PLANTS · 2026Article
- The multichromosomal structure evolution ofFrontiers in plant science · 2026Article
- Genomic insights into the mitochondrial architecture ofFrontiers in plant science · 2026Article
- The road less taken: Dihydroflavonol 4-reductase inactivation and delphinidin anthocyanin loss underpins a natural intraspecific flower colour variation.Molecular ecology · 2025Article
- Plastome and transcriptome analysis reveals a degenerated photosynthesis-related pathway in the mycoheterotrophic vanilloid orchid Cyrtosia lindleyana.BMC plant biology · 2025Article
- Discordance Down Under: Combining Phylogenomics and Fungal Symbioses to Detangle Difficult Nodes in a Diverse Tribe of Australian Terrestrial Orchids.Systematic biology · 2025Article
- Fine-tuned terpene synthase gene expression, functional promiscuity, and subcellular localization: implications for the evolution of complex floral volatile bouquet in Caladenia orchids.Plant & cell physiology · 2025Article
- Orchid phylogenetics and evolution: history, current status and prospects.Annals of botany · 2025Review
- Phylogenomic analysis of target enrichment and transcriptome data uncovers rapid radiation and extensive hybridization in the slipper orchid genus Cypripedium.Annals of botany · 2024Article
- Organellar phylogenomics at the epidendroid orchid base, with a focus on the mycoheterotrophic Wullschlaegelia.Annals of botany · 2024Article
- Genome of the early spider-orchid Ophrys sphegodes provides insights into sexual deception and pollinator adaptation.Nature communications · 2024Article
- Progress in systematics and biogeography of Orchidaceae.Plant diversity · 2024Review
- Advances and prospects of orchid research and industrialization.Horticulture research · 2022Article
- Conserved pigment pathways underpin the dark insectiform floral structures of sexually deceptiveFrontiers in plant science · 2022Article
Corrections and comments
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Authors and funding
2 authors.
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No grant is acknowledged in the PubMed record.
Abstract
The Orchidaceae is rivaled only by the Asteraceae as the largest plant family, with the estimated number of species exceeding 25,000 and encompassing more than 700 genera. To gain insights into the mechanisms driving species diversity across both global and local scales, well-supported phylogenies targeting different taxonomic groups and/or geographical regions will be crucial. High-throughput sequencing technologies have revolutionized the field of molecular phylogenetics by simplifying the process of obtaining genome-scale sequence data. Consequently, there has been an explosive growth of such data in public repositories. Here we took advantage of this unprecedented access to transcriptome data from predominantly non-phylogenetic studies to assess if it can be repurposed to gain rapid and accurate phylogenetic insights across the orchids. Exhaustive searches revealed transcriptomic data for more than 100 orchid species spanning 5 subfamilies, 13 tribes, 21 subtribes, and 50 genera that were amendable for exploratory phylotranscriptomic analysis. Next, we performed re-assembly of the transcriptomes before strategic selection of the final samples based on a gene completeness evaluation. Drawing on these data, we report phylogenetic analyses at both deep and shallow evolutionary scales
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