Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Search research articles

Related Experiment Videos

Codon contexts in enterobacterial and coliphage genes.

¹Institut d'Evolution Moléculaire, Université Claude Bernard, Villeurbanne, France.

Molecular Biology and Evolution

|July 1, 1987

Summary

Enterobacteria and some phages exhibit codon context biases, correlating base usage at successive third codon positions. This pattern, linked to translational efficiency, occurs in highly expressed genes, not just weakly expressed ones.

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

Experimental assessment of the accuracy of genomic selection in sugarcane.

TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·2013

Same author

A branch-heterogeneous model of protein evolution for efficient inference of ancestral sequences.

Systematic biology·2013

Same author

Genetic mapping of a major dominant gene for resistance to Ralstonia solanacearum in eggplant.

TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·2012

Same author

Species identification of staphylococci by amplification and sequencing of the tuf gene compared to the gap gene and by matrix-assisted laser desorption ionization time-of-flight mass spectrometry.

European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology·2010

Same author

Phylogeography of a subterranean amphipod reveals cryptic diversity and dynamic evolution in extreme environments.

Molecular ecology·2006

Same author

Relationship between morphological taxonomy and molecular divergence within Crustacea: proposal of a molecular threshold to help species delimitation.

Molecular phylogenetics and evolution·2006

Area of Science:

Genetics
Molecular Biology
Bioinformatics

Background:

Codon usage and context can influence gene expression and protein synthesis.
Previous studies suggested specific codon context patterns in weakly expressed Escherichia coli genes.

Purpose of the Study:

To investigate codon context correlations in enterobacterial, plasmid, and phage protein genes.
To quantify the modulation of base usage at successive third codon positions in highly expressed genes.

Main Methods:

Comparative analysis of codon context in enterobacterial, plasmid, phage, and eukaryotic gene sequences.
Quantification of base usage correlations at codon position III and adjacent codons.

Main Results:

Enterobacterial genes show correlations between third codon position and adjacent codons (upstream and downstream).
Plasmid genes lack context biases; phage genes show heterogeneous patterns (MS2, lambda, T7).
Favored patterns of successive third codon positions (purines or pyrimidines) are present in highly expressed genes, not limited to low expression.

Conclusions:

The correlation between successive third codon positions is a characteristic of enterobacteria and some phages, potentially for translational efficiency.
Codon context biases in yeast and human genes exist but are unrelated to translational efficiency.

Related Experiment Videos