ArticleGenome biology2011
Variation in global codon usage bias among prokaryotic organisms is associated with their lifestyles.
Article in Genome biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 71 papers.
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Who cites it
71 citing papers in PubMed.
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- The leading region of many plasmids is adapted for translational efficiency.Nucleic acids research · 2026Article
- Holostean genomes reveal evolutionary novelty in the vertebrate immunoproteasome that have implications for MHCI function.Molecular biology and evolution · 2026Article
- Chloroplast genome sequencing of Poa pratensis and comparative chloroplast genomics analysis with other 29 grass species.Functional & integrative genomics · 2026Article
- Comparative genomics reveals evolutionary signatures of genes associated with jumping in beetles.Zoological research · 2026Article
- Codon bias variation in Staphylococcus aureus.PloS one · 2026Article
- Multidimensional Gene Space as an Approach for Analyzing the Organization of Genomes.International journal of molecular sciences · 2025Article
- Patterns and drivers of genome-wide codon usage bias in the fungal order Sordariales.DNA research : an international journal for rapid publication of reports on genes and genomes · 2025Article
- Macroevolutionary changes in natural selection on codon usage reflect evolution of the tRNA pool across a budding yeast subphylum.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Comparative genomic analysis ofMicrobiology (Reading, England) · 2025Article
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- Does metabolic rate influence genome-wide amino acid composition in the course of animal evolution?Evolution letters · 2025Article
- Role of microbial life history strategy in shaping the characteristics and evolution of host-microbiota interactions.The ISME journal · 2025Article
- Genomic personalities ofISME communications · 2025Article
- Applying the Classic Test dN/dS to Detect Selection in Archaea.Methods in molecular biology (Clifton, N.J.) · 2025Article
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- Examining the Effects of Temperature on the Evolution of Bacterial tRNA Pools.Genome biology and evolution · 2024Article
- The protein domains of vertebrate species in which selection is more effective have greater intrinsic structural disorder.bioRxiv : the preprint server for biology · 2024Article
- Comparative genomics of thermosynechococcaceae and thermostichaceae: insights into codon usage bias.Acta biochimica Polonica · 2024Article
- Codon usage bias in yeasts and its correlation with gene expression, growth temperature, and protein structure.Frontiers in microbiology · 2024Article
11 more citing papers are in PubMed but not listed here.
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundIt is widely acknowledged that synonymous codons are used unevenly among genes in a genome. In organisms under translational selection, genes encoding highly expressed proteins are enriched with specific codons. This phenomenon, termed codon usage bias, is common to many organisms and has been recognized as influencing cellular fitness. This suggests that the global extent of codon usage bias of an organism might be associated with its phenotypic traits.
resultsTo test this hypothesis we used a simple measure for assessing the extent of codon bias of an organism, and applied it to hundreds of sequenced prokaryotes. Our analysis revealed a large variability in this measure: there are organisms showing very high degrees of codon usage bias and organisms exhibiting almost no differential use of synonymous codons among different genes. Remarkably, we found that the extent of codon usage bias corresponds to the lifestyle of the organism. Especially, organisms able to live in a wide range of habitats exhibit high extents of codon usage bias, consistent with their need to adapt efficiently to different environments. Pathogenic prokaryotes also demonstrate higher extents of codon usage bias than non-pathogenic prokaryotes, in accord with the multiple environments that many pathogens occupy. Our results show that the previously observed correlation between growth rate and metabolic variability is attributed to their individual associations with codon usage bias.
conclusionsOur results suggest that the extent of codon usage bias of an organism plays a role in the adaptation of prokaryotes to their environments.
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