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CHARACTER REMOVAL AS A MEANS FOR ASSESSING STABILITY OF CLADES.

Jerrold I Davis1

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

Cladistics : the International Journal of the Willi Hennig Society
|December 21, 2021
PubMed
Summary
This summary is machine-generated.

Clade stability is measured by the clade stability index (CSI), indicating how robust a clade is within phylogenetic analysis. A higher CSI suggests greater stability, reflecting the minimum character removals needed to lose clade resolution.

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Area of Science:

  • Phylogenetics
  • Computational Biology
  • Evolutionary Biology

Background:

  • Phylogenetic trees represent evolutionary relationships.
  • Assessing the robustness of clades within these trees is crucial for reliable evolutionary inference.
  • Existing methods may not fully capture clade stability against data perturbations.

Purpose of the Study:

  • To introduce and define the clade stability index (CSI) as a quantitative measure of clade robustness.
  • To establish a method for calculating CSI based on character removal.
  • To provide a metric for evaluating the reliability of clades in phylogenetic analyses.

Main Methods:

  • Clade stability is assessed by the minimum number of characters to remove for clade loss.
  • Clade loss is defined as the absence of the clade in the strict consensus tree.
  • The clade stability index (CSI) is calculated as the ratio of minimum character removals to informative characters.
  • Successive character removal is employed to find minimum character removal scores.

Main Results:

  • The CSI ranges from 0 (clade absent in the complete data set consensus tree) to 1 (all informative characters must be removed for clade loss).
  • A CSI of 1 indicates maximum stability, where a clade is highly resilient to character removal.
  • A CSI of 0 indicates minimum stability, where the clade is not resolved even with the complete data set.

Conclusions:

  • The clade stability index (CSI) offers a robust metric for quantifying clade stability in phylogenetic data sets.
  • Successive character removal provides a viable method for determining CSI values.
  • This index aids in evaluating the reliability and significance of clades in evolutionary studies.