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Related Experiment Video

Updated: Jul 5, 2026

A Concoction Pipeline for Generating Molecular Operational Taxonomic Units (MOTUs) Among Riparian and Aquatic Beetles

A Concoction Pipeline for Generating Molecular Operational Taxonomic Units (MOTUs) Among Riparian and Aquatic Beetles

Published on: July 11, 2025

Maximum-likelihood analysis using TREE-PUZZLE.

Heiko A Schmidt¹, Arndt von Haeseler

¹Center for Integrative Bioinformatics Vienna, Max F. Perutz Laboratories, Vienna, Austria.

Current Protocols in Bioinformatics

|April 23, 2008

Summary

This summary is machine-generated.

TREE-PUZZLE analyzes evolutionary relationships using quartet puzzling, a maximum-likelihood method. It also visualizes phylogenetic content and compares tree topologies for evolutionary insights.

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Last Updated: Jul 5, 2026

A Concoction Pipeline for Generating Molecular Operational Taxonomic Units (MOTUs) Among Riparian and Aquatic Beetles

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Published on: July 11, 2025

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Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

Area of Science:

Computational biology
Phylogenetics
Evolutionary biology

Background:

Understanding evolutionary relationships is crucial in biology.
Phylogenetic trees are key tools for visualizing evolutionary history.
Analyzing sequence data requires robust computational methods.

Purpose of the Study:

To introduce TREE-PUZZLE, a software for phylogenetic tree reconstruction.
To detail methods for analyzing evolutionary relationships using quartets.
To provide tools for visualizing and comparing phylogenetic trees.

Main Methods:

Tree reconstruction using the maximum-likelihood principle and quartet puzzling.
Likelihood mapping for visualizing phylogenetic content in alignments.
Statistical tests for comparing different tree topologies.

Main Results:

TREE-PUZZLE enables efficient and accurate phylogenetic tree reconstruction.
Likelihood mapping provides insights into phylogenetic signal.
Comparative tests allow for robust evaluation of tree hypotheses.

Conclusions:

TREE-PUZZLE is a versatile tool for evolutionary analysis.
The methods described facilitate a deeper understanding of evolutionary history.
This work contributes to the field of computational phylogenetics.