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 Concept Videos

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...
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.
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.
Gene Evolution - Fast or Slow?02:05

Gene Evolution - Fast or Slow?

The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
In contrast, regions which code...
Karyotyping01:17

Karyotyping

Overview

You might also read

Related Articles

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

Sort by
Same author

Linking Plant Metabolomics with Fungal Functional Dynamics Reveals a Noncanonical S-R-C Adaptive Trajectory.

Advanced science (Weinheim, Baden-Wurttemberg, Germany)·2026
Same author

Urban soils along the Kern River and Los Gatos Creek are hotspots for <i>Coccidioides</i> in the San Joaquin Valley of California.

bioRxiv : the preprint server for biology·2026
Same author

Multi-season analysis reveals hundreds of drought-responsive genes in sorghum.

The Plant journal : for cell and molecular biology·2026
Same author

Construction of a randomly barcoded insertional mutant library in the filamentous fungus <i>Trichoderma atroviride</i>.

bioRxiv : the preprint server for biology·2025
Same author

A novel regulator of the fungal phosphate starvation response revealed by transcriptional profiling and DNA affinity purification sequencing.

mBio·2025
Same author

Celebrating the fifth edition of the International Symposium on Fungal Stress - ISFUS, a decade after its 2014 debut.

Fungal biology·2025

Related Experiment Video

Updated: May 28, 2026

Technical Demonstration of Whole Genome Array Comparative Genomic Hybridization
16:37

Technical Demonstration of Whole Genome Array Comparative Genomic Hybridization

Published on: August 5, 2008

Array CGH phylogeny: how accurate are comparative genomic hybridization-based trees?

Luz B Gilbert1, Takao Kasuga, N Louise Glass

  • 1Laboratoire de Recherche en Sciences Végétales, UMR CNRS-Université Paul Sabatier 5546, Chemin de Borde Rouge - Auzeville 31326, Castanet Tolosan, France. gilbert@lrsv.ups-tlse.fr

BMC Genomics
|October 8, 2011
PubMed
Summary
This summary is machine-generated.

Array-based Comparative Genomic Hybridization (CGH) is unreliable for inferring evolutionary relationships. Analysis success depends heavily on chosen methods and taxa, with selective pruning offering limited improvement.

More Related Videos

Array Comparative Genomic Hybridization (Array CGH) for Detection of Genomic Copy Number Variants
09:16

Array Comparative Genomic Hybridization (Array CGH) for Detection of Genomic Copy Number Variants

Published on: February 21, 2015

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

Related Experiment Videos

Last Updated: May 28, 2026

Technical Demonstration of Whole Genome Array Comparative Genomic Hybridization
16:37

Technical Demonstration of Whole Genome Array Comparative Genomic Hybridization

Published on: August 5, 2008

Array Comparative Genomic Hybridization (Array CGH) for Detection of Genomic Copy Number Variants
09:16

Array Comparative Genomic Hybridization (Array CGH) for Detection of Genomic Copy Number Variants

Published on: February 21, 2015

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

Area of Science:

  • Genomics
  • Evolutionary Biology
  • Bioinformatics

Background:

  • Array-based Comparative Genomic Hybridization (CGH) is increasingly used for phylogenetic inference.
  • However, its reliability in determining evolutionary relationships remains poorly established.
  • Previous studies highlight the impact of tree topology and reference taxon placement on CGH-based phylogeny.

Purpose of the Study:

  • To evaluate the utility of CGH as a phylogenetic tool using experimental data.
  • To assess the influence of normalization and tree construction methods on phylogenetic accuracy.
  • To reanalyze existing CGH data from yeast to validate findings.

Main Methods:

  • Experimental CGH was performed on Neurospora species.
  • Array ratio data were normalized using loess, robust spline, and linear methods.
  • Neighbor-Joining and parsimony trees were constructed and compared to multilocus sequence analysis (MLSA) phylogenies.

Main Results:

  • The best combination of methods recovered the MLSA tree topology less than 50% of the time for Neurospora.
  • Reanalysis of yeast data showed accurate phylogeny recovery only after taxa pruning, including the reference.
  • Phylogenetic accuracy was sensitive to normalization techniques and taxon selection.

Conclusions:

  • CGH data present challenges for robust phylogenetic analysis.
  • The success of CGH phylogenetics is contingent on specific methodological choices and data inclusion.
  • While selective taxon pruning can improve results, it is not a practical approach for routine phylogenetic studies.