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Related Experiment Videos

Calculating the probability of multitaxon evolutionary trees: bootstrappers Gambit

J A Lake1

  • 1Molecular Biology Institute, University of California, Los Angeles 90095, USA.

Proceedings of the National Academy of Sciences of the United States of America
|October 10, 1995
PubMed
Summary

Bootstrappers Gambit offers a unified method for comparing phylogenetic trees from various algorithms. This approach suggests eocyte prokaryotes are the closest relatives to eukaryotes, aiding evolutionary studies.

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Area of Science:

  • Evolutionary Biology
  • Molecular Phylogenetics
  • Bioinformatics

Background:

  • Phylogenetic tree reconstruction from molecular data faces challenges due to diverse algorithms and evaluation criteria.
  • Comparing results across different phylogenetic analyses is difficult, hindering consensus on evolutionary relationships.

Purpose of the Study:

  • To introduce Bootstrappers Gambit, a global method for multitaxon phylogenetic reconstruction.
  • To provide a uniform, probability-based criterion for comparing diverse phylogenetic algorithms using Bayesian-Jeffreys'-bootstrap analysis.
  • To investigate the origin of eukaryotes by analyzing ribosomal small subunit RNA sequences.

Main Methods:

  • Bootstrappers Gambit accommodates various four-taxon algorithms, including distance, maximum likelihood, and parsimony methods.

Related Experiment Videos

  • The method integrates Bayesian-Jeffreys'-bootstrap analysis for standardized comparison.
  • Ribosomal small subunit RNA sequences were analyzed to infer eukaryotic origins.

    • Main Results:

    • Four common algorithms (paralinear, Jukes-Cantor, and Kimura distances) supported the eocyte topology for eukaryotic origins.
    • Maximum parsimony analysis supported an archaebacterial topology.
    • The findings suggest a closer relationship between eukaryotes and eocyte prokaryotes.

    Conclusions:

    • Bootstrappers Gambit provides a robust framework for comparing phylogenetic reconstructions across different analytical methods.
    • The study supports the eocyte hypothesis, identifying eocyte prokaryotes as the nearest prokaryotic relatives to eukaryotes.
    • This research contributes to resolving the evolutionary history of eukaryotes using molecular sequence data.