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

Detecting uber-operons in prokaryotic genomes.

Dongsheng Che1, Guojun Li, Fenglou Mao

  • 1Department of Biochemistry and Molecular Biology, University of Georgia, USA.

Nucleic Acids Research
|May 10, 2006
PubMed
Summary

We identified uber-operons, groups of related operons, in prokaryotic genomes. This computational approach aids in understanding genome evolution and discovering new biological pathways.

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

Effect of arginine on proliferation of porcine ovarian granulosa cells and steroid hormone synthesis.

Frontiers in veterinary science·2026
Same author

In Situ Bismuth Exsolution-Driven Controllable Bi/Bi<sub>4</sub>Ti<sub>3</sub>O<sub>12</sub> Heterointerface Catalysts for Enhanced Photocatalytic CO<sub>2</sub>-to-HCOOH Conversion.

Angewandte Chemie (International ed. in English)·2026
Same author

Modular Access to Boron Tripyrrolic Complexes from a Sequential Buchwald-Hartwig Amination/Boron Complexation Reaction.

Organic letters·2026
Same author

Characterization and Electrochemical Properties of Porous NiCo<sub>2</sub>O<sub>4</sub> Nanostructured Materials Synthesized Using an In Situ Polymerization Template Method.

Materials (Basel, Switzerland)·2026
Same author

Peginterferon α-2b Enhances Hepatitis B Surface Antigen Loss in Nucleos(t)ide Analogue-Suppressed Low Hepatitis B Surface Antigen Chronic Hepatitis B Patients: Everest Study in China.

Clinical gastroenterology and hepatology : the official clinical practice journal of the American Gastroenterological Association·2026
Same author

Soil fertility and rhizosphere microbiome affecting hydroxysafflor yellow A accumulation in safflower.

Frontiers in microbiology·2026

Area of Science:

  • Genomics
  • Computational Biology
  • Evolutionary Biology

Background:

  • Operons are fundamental units of gene regulation in prokaryotes.
  • Understanding operon evolution and function is key to deciphering microbial biology.
  • Existing methods for operon analysis have limitations in capturing broader evolutionary and functional associations.

Purpose of the Study:

  • To computationally identify and characterize "uber-operons" across prokaryotic genomes.
  • To develop a novel algorithm for predicting uber-operons based on conserved gene sets across multiple genomes.
  • To leverage uber-operon predictions for a deeper understanding of prokaryotic genome structure, evolution, and biological pathways.

Main Methods:

  • Developed a prediction algorithm to identify groups of functionally or transcriptionally related operons.

Related Experiment Videos

  • Applied the algorithm to a dataset of 91 prokaryotic genomes, using 90 as references for each target genome.
  • Analyzed predicted uber-operons in Escherichia coli K12 for conservation and association with known biological pathways and Gene Ontology (GO) terms.

    • Main Results:

    • Successfully predicted uber-operons across 91 prokaryotic genomes.
    • Identified 158 uber-operons in Escherichia coli K12, encompassing 1830 genes.
    • Found significant overlap between predicted uber-operons and known regulons, pathways, and biological processes, with potential for novel pathway discovery.

    Conclusions:

    • Uber-operon identification offers a powerful new framework for studying operon evolution and microbial genomics.
    • The predicted uber-operons provide valuable insights into conserved biological processes and potential novel pathways.
    • The developed Uber-Operon Database serves as a unique resource for researchers investigating microbial biology.