ArticleApplications in plant sciences2021
A target enrichment probe set for resolving the flagellate land plant tree of life.
Article in Applications in plant sciences, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers, 1 of them a synthesis that pooled it.
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Who cites it
36 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Type Genomics: A Framework for Integrating Genomic Data into Biodiversity and Taxonomic Research.Systematic biology · 2025Guideline
- Enrichment Probe Sets Combining Universal and Lineage-Specific Targets Help Resolve Recalcitrant Lineages.Molecular ecology resources · 2026Article
- Evidence of introgression amid phylogenetic conflict in Brachyotum, a plant radiation from the Tropical Andes.American journal of botany · 2026Article
- UnFATE: A Comprehensive Probe Set and Bioinformatics Pipeline for Phylogeny Reconstruction and Multilocus Barcoding of Filamentous Ascomycetes (Ascomycota, Pezizomycotina).Systematic biology · 2025Article
- Resolving relationships in the radiation of Australia's largest pea clade (Fabaceae tribe Mirbelieae) with target-capture sequencing.Annals of botany · 2025Article
- Phylogenetic Insights from a NovelPlants (Basel, Switzerland) · 2025Article
- Ancient reticulation, incomplete lineage sorting and the evolution of the pyrenoid at the dawn of hornwort diversification.Annals of botany · 2025Article
- Molecular and morphological insights intoPhytoKeys · 2025Article
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- Divergence and reticulation in the Mexican white oaks: ecological and phylogenomic evidence on species limits and phylogenetic networks in the Quercus laeta complex (Fagaceae).Annals of botany · 2024Article
- Microsatellite Content in 397 Nuclear Exons and Their Flanking Regions in the Fern Family Ophioglossaceae.Plants (Basel, Switzerland) · 2024Article
- Unveiling the diversification and dispersal of theFrontiers in plant science · 2024Article
- PhytoKeys · 2024Review
- Estimation of species divergence times in presence of cross-species gene flow.Systematic biology · 2023Article
- A New Approach Using Targeted Sequence Capture for Phylogenomic Studies across Cactaceae.Genes · 2022Article
- A Comprehensive Phylogenomic Platform for Exploring the Angiosperm Tree of Life.Systematic biology · 2022Article
- Phylogenomic assessment prompts recognition of the Serianthes clade and confirms the monophyly ofPhytoKeys · 2022Article
- An NGS-Based Phylogeny of Orthotricheae (Orthotrichaceae, Bryophyta) With the Proposal of the New GenusFrontiers in plant science · 2022Article
- Systematics and Plastome Evolution in Schizaeaceae.Frontiers in plant science · 2022Article
- An open and continuously updated fern tree of life.Frontiers in plant science · 2022Article
Corrections and comments
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Authors and funding
24 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
premiseNew sequencing technologies facilitate the generation of large-scale molecular data sets for constructing the plant tree of life. We describe a new probe set for target enrichment sequencing to generate nuclear sequence data to build phylogenetic trees with any flagellate land plants, including hornworts, liverworts, mosses, lycophytes, ferns, and all gymnosperms.
methodsWe leveraged existing transcriptome and genome sequence data to design the GoFlag 451 probes, a set of 56,989 probes for target enrichment sequencing of 451 exons that are found in 248 single-copy or low-copy nuclear genes across flagellate plant lineages.
resultsOur results indicate that target enrichment using the GoFlag451 probe set can provide large nuclear data sets that can be used to resolve relationships among both distantly and closely related taxa across the flagellate land plants. We also describe the GoFlag 408 probes, an optimized probe set covering 408 of the 451 exons from the GoFlag 451 probe set that is commercialized by RAPiD Genomics.
conclusionsA target enrichment approach using the new probe set provides a relatively low-cost solution to obtain large-scale nuclear sequence data for inferring phylogenetic relationships across flagellate land plants.
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