Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

A discrete Fourier analysis for evolutionary trees

M D Hendy1, D Penny, M A Steel

  • 1Department of Mathematics, Massey University, Palmerston North, New Zealand.

Proceedings of the National Academy of Sciences of the United States of America
|April 12, 1994
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

TESTING METHODS OF EVOLUTIONARY TREE CONSTRUCTION.

Cladistics : the international journal of the Willi Hennig Society·2021
Same author

IsProchlorothrix hollandica the best choice as a prokaryotic model for higher plant Chla/b photosynthesis?

Photosynthesis research·2013
Same author

NTRFinder: a software tool to find nested tandem repeats.

Nucleic acids research·2011
Same author

Progress with methods for constructing evolutionary trees.

Trends in ecology & evolution·2011
Same author

Recovering evolutionary trees under a more realistic model of sequence evolution.

Molecular biology and evolution·2009
Same author

Phylogenetic super-networks from partial trees.

IEEE/ACM transactions on computational biology and bioinformatics·2006
See all related articles

This study introduces spectral analysis, extending Fourier transforms for phylogenetic tree inference. The method corrects for multiple substitutions, enabling accurate evolutionary tree reconstruction using the closest tree algorithm.

Area of Science:

  • Computational Biology
  • Phylogenetics
  • Molecular Evolution

Background:

  • Discrete Fourier transformations model two-state character evolution (Cavender/Farris model).
  • Phylogenetic analysis requires accurate modeling of nucleotide substitutions.

Purpose of the Study:

  • Extend Fourier transformations for phylogenetic analysis.
  • Establish invertible relationships between phylogenetic trees and nucleotide frequencies.
  • Develop a method for inferring evolutionary trees correcting for multiple substitutions.

Main Methods:

  • Spectral analysis: extension of discrete Fourier transformations.
  • Kimura's 3ST model: incorporates three nucleotide substitution probabilities per edge.
  • Closest tree algorithm: a least-squares selection procedure for tree inference.

Related Experiment Videos

Main Results:

  • Spectral analysis provides invertible relationships for phylogenetic trees under the 3ST model.
  • The method allows global correction for multiple substitutions.
  • The closest tree algorithm identifies a unique best-fit tree with independent edge lengths.

Conclusions:

  • Spectral analysis offers a robust method for phylogenetic tree inference.
  • The approach corrects for complex evolutionary processes like multiple substitutions.
  • This method is statistically consistent and applicable to various selection criteria.