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• W3178753061 abstract "Abstract Phylogenetic analyses of genomic data provide a powerful means of reconstructing the evolutionary relationships among organisms, yet such analyses are often hindered by conflicting phylogenetic signals among loci. Identifying the signals that are most influential to species-tree estimation can help to inform the choice of data for phylogenomic analysis. We investigated this in an analysis of 30 phylogenomic data sets. For each data set, we examined the association between several branch-length characteristics of gene trees and the distance between these gene trees and the corresponding species trees. We found that the distance of each gene tree to the species tree inferred from the full data set was positively associated with variation in root-to-tip distances and negatively associated with mean branch support. However, no such associations were found for gene-tree length, a measure of the overall substitution rate at each locus. We further explored the usefulness of the best-performing branch-based characteristics for selecting loci for phylogenomic analyses. We found that loci that yield gene trees with high variation in root-to-tip distances have a disproportionately distant signal of tree topology compared with the complete data sets. These results suggest that rate variation across lineages should be taken into consideration when exploring and even selecting loci for phylogenomic analysis.[Branch support; data filtering; nucleotide substitution model; phylogenomics; substitution rate; summary coalescent methods.]" @default.
• W3178753061 created "2021-07-19" @default.
• W3178753061 creator A5003623801 @default.
• W3178753061 creator A5022291539 @default.
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• W3178753061 date "2021-07-13" @default.
• W3178753061 modified "2023-10-15" @default.
• W3178753061 title "Evolutionary Rate Variation among Lineages in Gene Trees has a Negative Impact on Species-Tree Inference" @default.
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• W3178753061 doi "https://doi.org/10.1093/sysbio/syab051" @default.
• W3178753061 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/34255084" @default.
• W3178753061 hasPublicationYear "2021" @default.
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