Inferring ancestral sequences in taxon-rich phylogenies

Mathematical Biosciences
Olivier Gascuel, Mike Steel

Abstract

Statistical consistency in phylogenetics has traditionally referred to the accuracy of estimating phylogenetic parameters for a fixed number of species as we increase the number of characters. However, it is also useful to consider a dual type of statistical consistency where we increase the number of species, rather than characters. This raises some basic questions: what can we learn about the evolutionary process as we increase the number of species? In particular, does having more species allow us to infer the ancestral state of characters accurately? This question is particularly important when sequence evolution varies in a complex way from character to character, as methods applicable for i.i.d. models may no longer be valid. In this paper, we assemble a collection of results to analyse various approaches for inferring ancestral information with increasing accuracy as the number of taxa increases.

References

Mar 22, 2001·Mathematical Biosciences·M Steel, A McKenzie
Nov 25, 2003·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Elchanan Mossel
Mar 12, 2004·Molecular Biology and Evolution·Nicolas Lartillot, Hervé Philippe
Jan 21, 2010·Bulletin of Mathematical Biology·Louxin ZhangGuoliang Li

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Citations

Mar 10, 2012·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Olivier DavidNicolas Vergne
Jul 7, 2010·Parasites & Vectors·Liang LiuStephen W Attwood
Aug 12, 2014·Journal of Theoretical Biology·Elchanan Mossel, Mike Steel
Oct 11, 2017·Bulletin of Mathematical Biology·Lina Herbst, Mareike Fischer
Feb 14, 2019·Journal of Mathematical Biology·Lina HerbstMike Steel
Apr 13, 2019·Bioinformatics·A OlivaS Guindon
Aug 23, 2019·Systematic Biology·Olivier Gascuel, Mike Steel

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