ArticlePeerJ2019
Characterizing gene tree conflict in plastome-inferred phylogenies.
Article in PeerJ, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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Who cites it
58 citing papers in PubMed.
- Phylogenomic insights into the genus Tulipa (Liliaceae): Taxonomy, evolution, and biogeography.American journal of botany · 2026Article
- Phylogenomic discordance among plastid genes in endangered Maltese Limonium.Scientific reports · 2026Article
- Integrative chloroplast genomics of Polygonaceae: evolutionary dynamics, codon optimization, and phylogenetic resolution.BMC plant biology · 2026Article
- A robust phylogenomic framework supports a revised intrafamilial classification of Urticaceae.Plant diversity · 2026Article
- Comparative and phylogenetic analysis of chloroplast genomes in the subtribe Leptoboeinae (Gesneriaceae).Frontiers in plant science · 2026Article
- Comparative genomics, phylogenomic reconstruction and divergence time analysis of 32Frontiers in plant science · 2026Article
- Plastome diversity and phylogenetic insights among modern Egyptian wheat cultivars: Genome-Wide and Gene-Level perspectives.BMC plant biology · 2025Article
- Concatenation fails to describe the anomalous radiation of giant cockroaches (Blattodea: Blaberidae) despite moderate to low discordance.BMC ecology and evolution · 2025Article
- Phylogenomic insights intoPlant diversity · 2025Article
- TreeHub: a comprehensive dataset of phylogenetic trees.Scientific data · 2025Article
- Novel perspectives on plastome evolution in Onagraceae.AoB PLANTS · 2025Article
- Comparative and evolutionary analysis of chloroplast genomes from five rare Styrax species.BMC genomics · 2025Article
- OGU: A Toolbox for Better Utilising Organelle Genomic Data.Molecular ecology resources · 2025Article
- Comprehensive Chloroplast Genomic Insights intoPlants (Basel, Switzerland) · 2025Article
- Rampant intraspecific variation of plastid genomes inEcology and evolution · 2024Article
- Deep genome skimming reveals the hybrid origin ofPlant diversity · 2024Article
- Article
- Phylogenomics and topological conflicts in the tribe Anthospermeae (Rubiaceae).Ecology and evolution · 2024Article
- More than a spiny morphology: plastome variation in the prickly pear cacti (Opuntieae).Annals of botany · 2023Article
- Plastome evolution and phylogenomic insights into the evolution of Lysimachia (Primulaceae: Myrsinoideae).BMC plant biology · 2023Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Evolutionary relationships among plants have been inferred primarily using chloroplast data. To date, no study has comprehensively examined the plastome for gene tree conflict. Using a broad sampling of angiosperm plastomes, we characterize gene tree conflict among plastid genes at various time scales and explore correlates to conflict (e.g., evolutionary rate, gene length, molecule type). We uncover notable gene tree conflict against a backdrop of largely uninformative genes. We find alignment length and tree length are strong predictors of concordance, and that nucleotides outperform amino acids. Of the most commonly used markers,
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