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

A coalescent-based method for detecting and estimating recombination from gene sequences.

Gil McVean1, Philip Awadalla, Paul Fearnhead

  • 1Department of Statistics, University of Oxford, Oxford OX1 3TG, United Kingdom. mcvean@stats.ox.ac.uk

Genetics
|March 20, 2002
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

Cross-definition GWAS of IBS in 2.8 million individuals reveals cardiometabolic and triglyceride-linked mechanisms.

Gut·2026
Same author

Circulating Cell-Free DNA Methylation Profiling Enables Detection, Distinction, and Estrogen Receptor Status Classification of Advanced Breast Cancer.

Cancer research·2026
Same author

Human haematopoietic stem cells remember inflammatory stress.

Nature·2026
Same author

<i>Trans</i>-eQTLs reveal the architecture of human gene regulatory networks.

medRxiv : the preprint server for health sciences·2026
Same author

Provincial variation and associated factors in adherence to cervical cancer screening in Canada: Evidence from the Canadian Partnership for Tomorrow's Health.

Journal of medical screening·2026
Same author

Identification of genetic risk loci associated with aquaporin 4-positive neuromyelitis optica spectrum disorder: a genome-wide association study.

The Lancet. Neurology·2026

This study introduces a new method to accurately estimate genetic recombination rates, even with high mutation rates in viruses and bacteria. The findings highlight the significant role of recombination in viral evolution.

Area of Science:

  • Evolutionary Biology
  • Population Genetics
  • Genomics

Background:

  • Estimating genetic recombination is crucial for evolutionary and medical genetics.
  • Recurrent mutations can mimic recombination patterns, biasing rate estimates.
  • Existing methods may struggle with high mutation rates found in viruses and bacteria.

Purpose of the Study:

  • To extend existing methods for estimating population recombination rates in genomes with high recurrent mutation rates.
  • To develop a robust permutation-based method for detecting recombination.
  • To assess the impact of recombination on viral, bacterial, and human mitochondrial DNA.

Main Methods:

  • Extension of an approximate-likelihood method based on coalescent theory.
  • Development of a novel permutation-based recombination detection method.

Related Experiment Videos

  • Application to sequence data from viruses, bacteria, and human mitochondrial DNA.

    • Main Results:

    • The developed method accurately estimates recombination rates in high-mutation genomes.
    • The permutation test is powerful and robust to model misspecification.
    • Extremely high recombination levels were detected in HIV-1 and HIV-2 sequences.

    Conclusions:

    • Recombination is a significant factor in viral population genetics and cannot be overlooked.
    • The new methods improve the accuracy of recombination rate estimation.
    • This work has implications for understanding viral evolution and disease dynamics.