Evaluating Phylogenetic Informativeness as a Predictor of Phylogenetic Signal for Metazoan, Fungal, and Mammalian Phylogenomic Data Sets
Joint Authors
López-Giráldez, Francesc
Moeller, Andrew H.
Townsend, Jeffrey P.
Source
Issue
Vol. 2013, Issue 2013 (31 Dec. 2013), pp.1-14, 14 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2013-06-26
Country of Publication
Egypt
No. of Pages
14
Main Subjects
Abstract EN
Phylogenetic research is often stymied by selection of a marker that leads to poor phylogenetic resolution despite considerable cost and effort.
Profiles of phylogenetic informativeness provide a quantitative measure for prioritizing gene sampling to resolve branching order in a particular epoch.
To evaluate the utility of these profiles, we analyzed phylogenomic data sets from metazoans, fungi, and mammals, thus encompassing diverse time scales and taxonomic groups.
We also evaluated the utility of profiles created based on simulated data sets.
We found that genes selected via their informativeness dramatically outperformed haphazard sampling of markers.
Furthermore, our analyses demonstrate that the original phylogenetic informativeness method can be extended to trees with more than four taxa.
Thus, although the method currently predicts phylogenetic signal without specifically accounting for the misleading effects of stochastic noise, it is robust to the effects of homoplasy.
The phylogenetic informativeness rankings obtained will allow other researchers to select advantageous genes for future studies within these clades, maximizing return on effort and investment.
Genes identified might also yield efficient experimental designs for phylogenetic inference for many sister clades and outgroup taxa that are closely related to the diverse groups of organisms analyzed.
American Psychological Association (APA)
López-Giráldez, Francesc& Moeller, Andrew H.& Townsend, Jeffrey P.. 2013. Evaluating Phylogenetic Informativeness as a Predictor of Phylogenetic Signal for Metazoan, Fungal, and Mammalian Phylogenomic Data Sets. BioMed Research International،Vol. 2013, no. 2013, pp.1-14.
https://search.emarefa.net/detail/BIM-1004738
Modern Language Association (MLA)
López-Giráldez, Francesc…[et al.]. Evaluating Phylogenetic Informativeness as a Predictor of Phylogenetic Signal for Metazoan, Fungal, and Mammalian Phylogenomic Data Sets. BioMed Research International No. 2013 (2013), pp.1-14.
https://search.emarefa.net/detail/BIM-1004738
American Medical Association (AMA)
López-Giráldez, Francesc& Moeller, Andrew H.& Townsend, Jeffrey P.. Evaluating Phylogenetic Informativeness as a Predictor of Phylogenetic Signal for Metazoan, Fungal, and Mammalian Phylogenomic Data Sets. BioMed Research International. 2013. Vol. 2013, no. 2013, pp.1-14.
https://search.emarefa.net/detail/BIM-1004738
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1004738