ArticleNucleic acids research1997
Codon bias in Escherichia coli: the influence of codon context on mutation and selection.
Article in Nucleic acids research, 1997. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
29 citing papers in PubMed, 77 citations in OpenAlex.
- Mapping evolutionary paradigm of bovine viral diarrhea virusVirulence · 2025Article
- Mapping evolutionary paradigm of Oropouche virus driven by dinucleotide bias and context-dependent codon bias.Virulence · 2025Article
- Evolutionary paradigm of distinct viral coding regions of BVDV associated with different nucleotide usage patterns.BMC veterinary research · 2025Article
- Highly inclined light sheet allows volumetric super-resolution imaging of efflux pumps distribution in bacterial biofilms.Scientific reports · 2024Article
- Mechanisms governing codon usage bias and the implications for protein expression in the chloroplast of Chlamydomonas reinhardtii.The Plant journal : for cell and molecular biology · 2022Review
- Forces acting on codon bias in malaria parasites.Scientific reports · 2018Article
- Compensating the Fitness Costs of Synonymous Mutations.Molecular biology and evolution · 2016Article
- Mutations to Less-Preferred Synonymous Codons in a Highly Expressed Gene of Escherichia coli: Fitness and Epistatic Interactions.PloS one · 2016Article
- New insights into the interplay between codon bias determinants in plants.DNA research : an international journal for rapid publication of reports on genes and genomes · 2015Article
- The effects of codon context on in vivo translation speed.PLoS genetics · 2014Article
- The effects of the context-dependent codon usage bias on the structure of the nsp1α of porcine reproductive and respiratory syndrome virus.BioMed research international · 2014Article
- Fitness costs of synonymous mutations in the rpsT gene can be compensated by restoring mRNA base pairing.PloS one · 2013Article
- Forces that influence the evolution of codon bias.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2010Review
- Preferred and avoided codon pairs in three domains of life.BMC genomics · 2008Article
- Synonymous codon usage bias dependent on local nucleotide context in the class Deinococci.Journal of molecular evolution · 2008Article
- Large scale comparative codon-pair context analysis unveils general rules that fine-tune evolution of mRNA primary structure.PloS one · 2007Article
- The effect of local nucleotides on synonymous codon usage in the honeybee (Apis mellifera L.) genome.Journal of molecular evolution · 2007Article
- Evolutionary constraints on codon and amino acid usage in two strains of human pathogenic actinobacteria Tropheryma whipplei.Journal of molecular evolution · 2006Article
- DNA sequences shaped by selection for stability.PLoS genetics · 2006Article
- Codon usage patterns in Nematoda: analysis based on over 25 million codons in thirty-two species.Genome biology · 2006Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The codon bias in Escherichia coli for all two-fold degenerate amino acids was studied as dependent on the context from the six bases in the nearest surrounding codons. By comparing the results in genes at different expression levels, effects that are due to differences in mutation rates can be distinguished from those that are due to selection. Selective effects on the codon bias is found mostly from the first neighbouring base in the 3'direction, while neighbouring bases further away influence mostly the mutational bias. In some cases it is also possible to identify specific molecular processes, repair or avoidance of frame shift, that lead to the context dependence of the bias.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.