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Quartet-based inference is statistically consistent under the unified duplication-loss-coalescence model.

Alexey Markin1, Oliver Eulenstein2

  • 1Virus and Prion Research Unit, National Animal Disease Center, USDA-ARS, Ames, IA 50010, USA.

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Summary

ASTRAL, a popular phylogenetic method, is now proven statistically consistent under the gene duplication-loss-coalescence (DLCoal) model, supporting its use in evolutionary studies.

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Area of Science:

  • Phylogenetics
  • Computational Biology
  • Evolutionary Biology

Background:

  • The multispecies coalescent (MSC) model justifies incomplete lineage sorting-aware species tree inference.
  • ASTRAL is a popular quartet-based method statistically consistent under MSC.
  • Gene duplication and loss (GDL) is a common evolutionary process.

Purpose of the Study:

  • To prove ASTRAL's statistical consistency under the general duplication-loss-coalescence (DLCoal) model.
  • To extend theoretical support for quartet-based phylogenetic methods in complex evolutionary scenarios.

Main Methods:

  • Theoretical analysis of phylogenetic inference methods.
  • Mathematical proof of statistical consistency under the DLCoal model.

Main Results:

  • ASTRAL is statistically consistent under the general DLCoal model.
  • Quartet-based inference approaches are statistically consistent under DLCoal.

Conclusions:

  • This work provides theoretical validation for ASTRAL's performance in evolutionary studies involving gene duplication and loss.
  • The findings broaden the applicability of quartet-based methods for inferring species trees under complex evolutionary models.