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

Gene Conversion02:08

Gene Conversion

Other than maintaining genome stability via DNA repair, homologous recombination plays an important role in diversifying the genome. In fact, the recombination of sequences forms the molecular basis of genomic evolution. Random and non-random permutations of genomic sequences create a library of new amalgamated sequences. These newly formed genomes can determine the fitness and survival of cells. In bacteria, homologous and non-homologous types of recombination lead to the evolution of new...
Fixing Double-strand Breaks02:04

Fixing Double-strand Breaks

The double-stranded structure of DNA has two major advantages. First, it serves as a safe repository of genetic information where one strand serves as the back-up in case the other strand is damaged. Second, the double-helical structure can be wrapped around proteins called histones to form nucleosomes, which can then be tightly wound to form chromosomes. This way, DNA chains up to 2 inches long can be contained within microscopic structures in a cell. A double-stranded break not only damages...
Fixing Double-strand Breaks02:04

Fixing Double-strand Breaks

The double-stranded structure of DNA has two major advantages. First, it serves as a safe repository of genetic information where one strand serves as the back-up in case the other strand is damaged. Second, the double-helical structure can be wrapped around proteins called histones to form nucleosomes, which can then be tightly wound to form chromosomes. This way, DNA chains up to 2 inches long can be contained within microscopic structures in a cell. A double-stranded break not only damages...
Homologous Recombination02:31

Homologous Recombination

The basic reaction of homologous recombination (HR) involves two chromatids that contain DNA sequences sharing a significant stretch of identity. One of these sequences uses a strand from another as a template to synthesize DNA in an enzyme-catalyzed reaction. The final product is a novel amalgamation of the two substrates. To ensure an accurate recombination of sequences, HR is restricted to the S and G2 phases of the cell cycle. At these stages, the DNA has been replicated already and the...
Homologous Recombination02:31

Homologous Recombination

The basic reaction of homologous recombination (HR) involves two chromatids that contain DNA sequences sharing a significant stretch of identity. One of these sequences uses a strand from another as a template to synthesize DNA in an enzyme-catalyzed reaction. The final product is a novel amalgamation of the two substrates. To ensure an accurate recombination of sequences, HR is restricted to the S and G2 phases of the cell cycle. At these stages, the DNA has been replicated already and the...
Restarting Stalled Replication Forks02:37

Restarting Stalled Replication Forks

DNA replication is initiated at sites containing predefined DNA sequences known as origins of replication. DNA is unwound at these sites by the minichromosome maintenance (MCM) helicase and other factors such as Cdc45 and the associated GINS complex.The unwound single strands are protected by replication protein A (RPA) until DNA polymerase starts synthesizing DNA at the 5’ end of the strand in the same direction as the replication fork. To prevent the replication fork from falling apart, a...

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

Branching-Process Modeling of Homology Distribution in Salmonid Genomes.

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

A New Residual Approach for Estimating Undocumented Populations.

The International migration review·2025
Same author

The genome and population genomics of allopolyploid Coffea arabica reveal the diversification history of modern coffee cultivars.

Nature genetics·2024
Same author

Improved survival of patients receiving immunotherapy and chemotherapy following curative-intent resection of colorectal liver metastases.

Journal of gastrointestinal surgery : official journal of the Society for Surgery of the Alimentary Tract·2024
Same author

Capacity, Collision Avoidance and Shopping Rate under a Social Distancing Regime.

Entropy (Basel, Switzerland)·2023
Same journal

CNV-ECOD: A copy number variation detection method based on ECOD algorithm using next-generation sequencing data.

Journal of bioinformatics and computational biology·2026
Same journal

ReinVar: A model-free paradigm-based reinforcement learning approach to detect copy number variation.

Journal of bioinformatics and computational biology·2026
Same journal

When pipelines run but coordinates fail: A simple spatial specificity check for false locality in post-GWAS analysis.

Journal of bioinformatics and computational biology·2026
Same journal

Comparative benchmarking of template-based, evolutionary-diffusion, and generative language models for IsPETase structure prediction.

Journal of bioinformatics and computational biology·2026
Same journal

Trap spaces as labelled ideals of SCC posets: A structural-functional theory of reachability in asynchronous boolean networks.

Journal of bioinformatics and computational biology·2026
Same journal

Erratum - DDINet: Drug-drug interaction prediction network based on multi-molecular fingerprint features and multi-head attention centered weighted autoencoder.

Journal of bioinformatics and computational biology·2026
See all related articles

Related Experiment Video

Updated: Jun 24, 2026

Fluorescence In Situ Hybridization on DNA Halo Preparations to Reveal Whole Chromosomes, Telomeres and Gene Loci
09:07

Fluorescence In Situ Hybridization on DNA Halo Preparations to Reveal Whole Chromosomes, Telomeres and Gene Loci

Published on: March 4, 2021

Genome halving with double cut and join.

Robert Warren1, David Sankoff

  • 1School of Information Technology and Engineering, University of Ottawa, 800 King Edward Avenue, Ottawa, Ontario, K1N 6N5, Canada. rwarr059@uottawa.ca

Journal of Bioinformatics and Computational Biology
|April 3, 2009
PubMed
Summary
This summary is machine-generated.

This study solves the genome halving problem for complex genomes with multiple chromosome types, including transpositions and block interchanges. The new general algorithm improves upon previous methods for genomic rearrangements.

More Related Videos

CRISPR/Cas9-mediated Targeted Integration In Vivo Using a Homology-mediated End Joining-based Strategy
08:22

CRISPR/Cas9-mediated Targeted Integration In Vivo Using a Homology-mediated End Joining-based Strategy

Published on: March 12, 2018

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.
22:27

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.

Published on: May 6, 2010

Related Experiment Videos

Last Updated: Jun 24, 2026

Fluorescence In Situ Hybridization on DNA Halo Preparations to Reveal Whole Chromosomes, Telomeres and Gene Loci
09:07

Fluorescence In Situ Hybridization on DNA Halo Preparations to Reveal Whole Chromosomes, Telomeres and Gene Loci

Published on: March 4, 2021

CRISPR/Cas9-mediated Targeted Integration In Vivo Using a Homology-mediated End Joining-based Strategy
08:22

CRISPR/Cas9-mediated Targeted Integration In Vivo Using a Homology-mediated End Joining-based Strategy

Published on: March 12, 2018

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.
22:27

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.

Published on: May 6, 2010

Area of Science:

  • Computational Biology
  • Genomics
  • Bioinformatics

Background:

  • The genome halving problem is crucial for understanding genome evolution and rearrangements.
  • Previous solutions were limited to specific types of genomic rearrangements like inversions and reciprocal translocations.
  • Complex genomes with multiple linear and circular chromosomes present a significant challenge.

Purpose of the Study:

  • To develop a generalized algorithm for the genome halving problem.
  • To accommodate a wider range of genomic rearrangements, including transpositions and block interchanges.
  • To apply the algorithm to real-world genomic datasets and compare its performance.

Main Methods:

  • Developed a novel algorithmic approach to address the genome halving problem.
  • Extended the problem's scope to include transpositions and block interchanges.
  • Incorporated handling for genomes with multiple linear and circular chromosomes.
  • Applied the algorithm to diverse biological datasets.

Main Results:

  • Successfully solved the genome halving problem in a more general context than previously possible.
  • The algorithm effectively handles genomes with mixed linear and circular chromosome structures.
  • Demonstrated the algorithm's applicability and efficiency on multiple datasets.
  • Comparative analysis showed improvements over existing methods.

Conclusions:

  • The generalized genome halving algorithm provides a powerful new tool for comparative genomics.
  • This advancement facilitates more accurate reconstruction of genome evolution histories.
  • The method is robust and applicable to a wide range of complex genomes.