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ON CONSENSUS, COLLAPSIBILITY, AND CLADE CONCORDANCE.

Kevin C Nixon1, James M Carpenter2

  • 1Bailey Hortorium, Cornell University, Ithaca, New York, 14853, U.S.A.

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Summary
This summary is machine-generated.

This study clarifies consensus trees in cladistics, distinguishing strict consensus from compromise trees. It introduces the clade concordance index to measure character conflict between cladograms.

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Area of Science:

  • Systematic Biology
  • Phylogenetics
  • Computational Biology

Background:

  • Cladistics relies on cladograms to represent evolutionary relationships.
  • Consensus trees summarize agreement among multiple cladograms.
  • Current methods may produce ambiguously supported cladograms.

Purpose of the Study:

  • To review and clarify consensus tree concepts in cladistics.
  • To distinguish between strict consensus and compromise trees.
  • To propose a new index for measuring inter-cladogram conflict.

Main Methods:

  • Review of cladistics literature on consensus trees.
  • Analysis of cladogram support and optimization.
  • Development of the clade concordance index based on consensus tree length.

Main Results:

  • Strict consensus (Nelson tree) represents unambiguous agreement.
  • Semistrictly supported cladograms may be ambiguously supported and collapsible.
  • Consensus tree length reflects character conflict between cladograms.

Conclusions:

  • Strict support requires branches to be supported under all optimizations.
  • The clade concordance index quantifies character conflict among cladograms.
  • Understanding consensus is crucial for accurate phylogenetic inference.