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Related Experiment Video

Updated: Oct 10, 2025

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

Partitioned Bremer support and multiple trees.

Christine L Lambkin¹, Michael S Y Lee^2,3, Shaun L Winterton⁴

¹Department of Zoology and Entomology, University of Queensland, Brisbane, Qld 4072, Australia.

Cladistics : the International Journal of the Willi Hennig Society

|December 16, 2021

Summary

Partitioned Bremer support (PBS) analysis requires careful application. Averaging support values across multiple trees can hide data conflicts, emphasizing the need to examine support for individual trees in phylogenetic analyses.

Keywords:

Incongruence Partitioned Bremer support Simultaneous analysis

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Published on: July 11, 2025

Area of Science:

Phylogenetics
Computational Biology
Systematics

Background:

Partitioned Bremer support (PBS) is a key metric for evaluating data congruence in combined phylogenetic analyses.
Current methodologies for PBS calculation may obscure important details regarding data conflict.

Purpose of the Study:

To clarify and refine the application of Partitioned Bremer Support (PBS) in phylogenetic analyses.
To highlight potential issues in current PBS calculation methods and propose improvements.

Main Methods:

Investigated scenarios where multiple equally parsimonious trees are recovered during constrained searches.
Examined the impact of averaging PBS across multiple trees versus analyzing individual trees.
Considered PBS calculation on consensus trees versus individual most parsimonious trees (MPTs).

Main Results:

Averaging PBS across multiple equally parsimonious trees can conceal conflicts within datasets.
Calculating PBS on each constrained tree provides a more accurate assessment of congruence.
Analyzing PBS on individual MPTs or suboptimal trees yields richer information than using only consensus trees.

Conclusions:

Standard PBS calculation methods, particularly averaging across trees, can mask critical data conflicts.
For robust phylogenetic inference, PBS should be assessed for each relevant constrained tree and individual MPTs.