The perils of intralocus recombination for inferences of molecular convergence

BioRxiv : the Preprint Server for Biology
Fabio K MendesMatthew W Hahn


Accurate inferences of convergence require that the appropriate tree topology be used. If there is a mismatch between the tree a trait has evolved along and the tree used for analysis, then false inferences of convergence ('hemiplasy') can occur. To avoid problems of hemiplasy when there are high levels of gene tree discordance with the species tree, researchers have begun to construct tree topologies from individual loci. However, due to intralocus recombination even locus-specific trees may contain multiple topologies within them. This implies that the use of individual tree topologies discordant with the species tree can still lead to incorrect inferences about molecular convergence. Here we examine the frequency with which single exons and single protein-coding genes contain multiple underlying tree topologies, in primates and Drosophila, and quantify the effects of hemiplasy when using trees inferred from individual loci. In both clades we find that there are most often multiple diagnosable topologies within single exons and whole genes, with 91% of Drosophila protein-coding genes containing multiple topologies. Because of this underlying topological heterogeneity, even using trees inferred from individual protein-coding g...Continue Reading

Related Concepts

Trees (plant)
Exon-exon Junction Complex Location
Research Personnel
Recombination, Genetic
Whole Body
Convergence - Direction

Related Feeds

BioRxiv & MedRxiv Preprints

BioRxiv and MedRxiv are the preprint servers for biology and health sciences respectively, operated by Cold Spring Harbor Laboratory. Here are the latest preprint articles (which are not peer-reviewed) from BioRxiv and MedRxiv.

Related Papers

Evolution; International Journal of Organic Evolution
Matthew W Hahn, Luay Nakhleh
BioRxiv : the Preprint Server for Biology
Fabio K Mendes, Matthew W Hahn
Proceedings of the National Academy of Sciences of the United States of America
Rafael F Guerrero, Matthew W Hahn
© 2020 Meta ULC. All rights reserved