ArticlePLoS currents2015
Concatenation and Species Tree Methods Exhibit Statistically Indistinguishable Accuracy under a Range of Simulated Conditions.
Article in PLoS currents, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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Who cites it
38 citing papers in PubMed.
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- Integrating Genomics and Biogeography to Unravel the Origin of a Mountain Biota: The Case of a Reptile Endemicity Hotspot in Arabia.Systematic biology · 2025Article
- Advancements in prokaryotic systematics and the role of Bergey's International Society for Microbial Systematicsin addressing challenges in the meta-data era.National science review · 2024Review
- The sweet tabaiba or there and back again: phylogeographical history of the Macaronesian Euphorbia balsamifera.Annals of botany · 2024Article
- Performance of intron 7 of theZooKeys · 2023Article
- Providing Scale to a Known Taxonomic Unknown-At Least a 70-Fold Increase in Species Diversity in a Cosmopolitan Nominal Taxon of Lichen-Forming Fungi.Journal of fungi (Basel, Switzerland) · 2022Article
- Whole genome sequencing and the application of a SNP panel reveal primary evolutionary lineages and genomic variation in the lion (Panthera leo).BMC genomics · 2022Article
- Species boundaries in the messy middle-A genome-scale validation of species delimitation in a recently diverged lineage of coastal fog desert lichen fungi.Ecology and evolution · 2021Article
- cognac: rapid generation of concatenated gene alignments for phylogenetic inference from large, bacterial whole genome sequencing datasets.BMC bioinformatics · 2021Article
- Correlation between acoustic divergence and phylogenetic distance in soniferous European gobiids (Gobiidae; Gobius lineage).PloS one · 2021Article
- New view on the organization and evolution of Palaeognathae mitogenomes poses the question on the ancestral gene rearrangement in Aves.BMC genomics · 2020Article
- Genetic origins and diversity of bushpigs from Madagascar (Potamochoerus larvatus, family Suidae).Scientific reports · 2020Article
- An integrative phylogenomic approach to elucidate the evolutionary history and divergence times of Neuropterida (Insecta: Holometabola).BMC evolutionary biology · 2020Article
- Identifying branch-specific positive selection throughout the regulatory genome using an appropriate proxy neutral.BMC genomics · 2020Article
- Unraveling the Phylogenomic Relationships of the Most Diverse African Palm GenusPlants (Basel, Switzerland) · 2020Article
- Genome-scale data reveal the role of hybridization in lichen-forming fungi.Scientific reports · 2020Article
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Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Phylogeneticists have long understood that several biological processes can cause a gene tree to disagree with its species tree. In recent years, molecular phylogeneticists have increasingly foregone traditional supermatrix approaches in favor of species tree methods that account for one such source of error, incomplete lineage sorting (ILS). While gene tree-species tree discordance no doubt poses a significant challenge to phylogenetic inference with molecular data, researchers have only recently begun to systematically evaluate the relative accuracy of traditional and ILS-sensitive methods. Here, we report on simulations demonstrating that concatenation can perform as well or better than methods that attempt to account for sources of error introduced by ILS. Based on these and similar results from other researchers, we argue that concatenation remains a useful component of the phylogeneticist's toolbox and highlight that phylogeneticists should continue to make explicit comparisons of results produced by contemporaneous and classical methods.
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Registered trials
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