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Related Concept Videos

Microbial Phylogeny01:28

Microbial Phylogeny

Understanding the evolutionary relationships among microorganisms is fundamental to microbial ecology and taxonomy. Phylogenetic trees are essential tools for inferring these relationships, relying primarily on comparative analyses of molecular sequences such as DNA, RNA, or proteins. In microbial studies, these trees typically depict the evolutionary paths of diverse bacterial and archaeal species by mapping genetic differences accumulated over time.Phylogenetic trees are composed of tips,...
Phylogenetic Trees03:21

Phylogenetic Trees

Phylogenetic trees come in many forms. It matters in which sequence the organisms are arranged from the bottom to the top of the tree, but the branches can rotate at their nodes without altering the information. The lines connecting individual nodes can be straight, angled, or even curved.The length of the branches can depict time or the relative amount of change among organisms. For instance, the branch length might indicate the number of amino acid changes in the sequence that underlies the...
Phylogenetic Trees03:21

Phylogenetic Trees

Phylogenetic trees come in many forms. It matters in which sequence the organisms are arranged from the bottom to the top of the tree, but the branches can rotate at their nodes without altering the information. The lines connecting individual nodes can be straight, angled, or even curved.The length of the branches can depict time or the relative amount of change among organisms. For instance, the branch length might indicate the number of amino acid changes in the sequence that underlies the...
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
Phylogeny01:23

Phylogeny

Phylogeny is concerned with the evolutionary diversification of organisms or groups of organisms. A group of organisms with a name is called a taxon (singular). Taxa (plural) can span different levels of the evolutionary hierarchy. For instance, the group containing all birds is a taxon (comprising the class Aves), and the group of all species of daisies (the genus Bellis) is a taxon. Phylogenies can likewise include just one genus (i.e., depict species relationships) or span an entire...
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Modern Molecular Taxonomy

Advancements in molecular biology have revolutionized the identification and characterization of bacteria, with multiple methods leveraging DNA sequencing for enhanced precision. As sequencing technologies improve and costs decline, these approaches are increasingly used in clinical, environmental, and evolutionary studies.Multilocus Sequence Typing (MLST) examines several housekeeping genes, essential chromosomal genes encoding cellular functions, to distinguish strains. Approximately...

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Related Experiment Video

Updated: Jul 7, 2026

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

Phyutility: a phyloinformatics tool for trees, alignments and molecular data.

Stephen A Smith1, Casey W Dunn

  • 1Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT 06520, USA. stephen.smith@yale.edu

Bioinformatics (Oxford, England)
|January 30, 2008
PubMed
Summary
This summary is machine-generated.

Phyutility offers phyloinformatics tools for analyzing phylogenetic trees and molecular data. This software facilitates scripted analyses and manages large datasets efficiently.

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Last Updated: Jul 7, 2026

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Area of Science:

  • Phylogenetics and Bioinformatics

Background:

  • Phyutility is a software package providing essential phyloinformatics tools.
  • It is available with source code, documentation, examples, and executables online.

Purpose of the Study:

  • To present Phyutility, a versatile tool for phylogenetic and molecular data analysis.
  • To highlight its utility in summarizing, manipulating, and retrieving biological data.

Main Methods:

  • Utilizes a simple command-line interface for ease of use.
  • Integrates a database for efficient handling of large datasets.
  • Provides tools for phylogenetic tree manipulation and molecular data processing.

Main Results:

  • Enables efficient summarization and manipulation of phylogenetic trees.
  • Facilitates the processing and retrieval of molecular data from sources like NCBI.
  • Demonstrates capability in handling large-scale biological datasets.

Conclusions:

  • Phyutility offers a robust and integrated solution for common phyloinformatic tasks.
  • Its command-line interface promotes integration into automated analysis pipelines.
  • The software is well-suited for researchers working with substantial phylogenetic and molecular datasets.