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

Polyploids, genome halving and phylogeny.

David Sankoff1, Chunfang Zheng, Qian Zhu

  • 1Department of Mathematics and Statistics, University of Ottawa, Ottawa K1N 6N5, Canada. sankoff@uottawa.ca

Bioinformatics (Oxford, England)
|July 25, 2007
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

Legume genome structures and histories inferred from Cercis canadensis and Chamaecrista fasciculata genomes.

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

Genomic selection for seed yield enhances flax breeding efficiency.

Molecular breeding : new strategies in plant improvement·2026
Same author

The Role of Methylacrylylated Hyaluronic Acid Hydrogels in Promoting Skin Wound Healing.

Iranian journal of pharmaceutical research : IJPR·2026
Same author

Branching-Process Modeling of Homology Distribution in Salmonid Genomes.

Journal of computational biology : a journal of computational molecular cell biology·2026
Same author

Melatonin mitigates cold damages by modulating the photosynthetic-photorespiratory supercycle and ROS/RNS homeostasis in Kandelia obovata.

Plant physiology and biochemistry : PPB·2025
Same author

[Distribution characteristics of polymorphonuclear neutrophil pulmonary infiltration and the mechanism of neutrophil elastase in promoting lung injury in the early stages of severe burns].

Zhonghua wei zhong bing ji jiu yi xue·2025
Same journal

MCFST: Spatial domain identification method based on multi-view graph convolutional network and graph fusion network.

Bioinformatics (Oxford, England)·2026
Same journal

SpaBiT: Enhancing Spatial Transcriptomics Resolution via Bidirectional Attention Transformers.

Bioinformatics (Oxford, England)·2026
Same journal

EDEL: Enhancing Dense Retrievers for Curation of Biomedical Knowledge Bases.

Bioinformatics (Oxford, England)·2026
Same journal

Informative Relational Learning for Adverse Reaction Prediction with Enhanced Generalization to Novel Drugs.

Bioinformatics (Oxford, England)·2026
Same journal

An interpretable deep learning framework uncovers features governing CRISPR-Cas9 genome-editing efficiency.

Bioinformatics (Oxford, England)·2026
Same journal

3DICE: Interpretable 3D Cross-Modal Learning for Drug-Target Interaction Prediction and Large-Scale Drug Discovery.

Bioinformatics (Oxford, England)·2026
See all related articles

This study introduces a new computational framework to include polyploid genomes in phylogenetic analyses, overcoming previous limitations. The method integrates rearrangement median and genome halving algorithms, enabling evolutionary studies of organisms like cereals and yeast.

Area of Science:

  • Genomics
  • Computational Biology
  • Evolutionary Biology

Background:

  • Polyploidization events (autopolyploidization and allopolyploidization) increase chromosome number and genome content.
  • Current phylogenetic methods cannot analyze diploid and polyploid genomes together due to differing ortholog sets.

Purpose of the Study:

  • To develop a computational framework enabling the inclusion of polyploid genomes in phylogenetic analyses.
  • To address the challenge of comparing genomes with different ploidy levels in evolutionary studies.

Main Methods:

  • Integration of rearrangement median and genome halving algorithms into a unified framework.
  • Development of a heuristic solution for a specific case: a phylogenetic tree with one tetraploid and two diploid genomes.

Related Experiment Videos

Main Results:

  • A novel framework is proposed for phylogenetic analysis of genomes with varying ploidy levels.
  • A heuristic solution was implemented and applied to analyze the evolutionary history of cereals and yeast.

Conclusions:

  • The proposed framework offers a potential solution for incorporating polyploid genomes into comparative genomic and phylogenetic studies.
  • Further research is needed to address remaining open problems within the general framework.