ArticleNature microbiology2022
Widespread stop-codon recoding in bacteriophages may regulate translation of lytic genes.
Article in Nature microbiology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
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Who cites it
39 citing papers in PubMed, 67 citations in OpenAlex.
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- Picobirnavirus: how do you find where it's hiding?Critical reviews in microbiology · 2026Review
- VIRE: a metagenome-derived, planetary-scale virome resource with environmental context.Nucleic acids research · 2026Article
- Metagenomic analysis of the DNA virome communities in swine lungs.Frontiers in microbiology · 2026Article
- Methanogenic archaea encoding Pyrrolysine maintain ambiguous amber codon usage.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Engineered orthogonal translation systems from metagenomic libraries expand the genetic code.bioRxiv : the preprint server for biology · 2025Article
- Codon Usage Evolution in Viruses: Implications for Survival and Pathogenicity.Journal of molecular evolution · 2025Review
- Computational function prediction of bacteria and phage proteins.Microbiology and molecular biology reviews : MMBR · 2025Review
- A prevalent huge phage clade in human and animal gut microbiomes.bioRxiv : the preprint server for biology · 2025Article
- Zeta CrAss-like Phages, a Separate Phage Family Using a Variety of Adaptive Mechanisms to Persist in Their Hosts.International journal of molecular sciences · 2025Review
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- Comparison of phage and plasmid populations in the gut microbiota between Parkinson's disease patients and controls.Scientific reports · 2025Article
- The nuclear and mitochondrial genomes of amoebophrya sp. ex Karlodinium veneficum.G3 (Bethesda, Md.) · 2025Article
- Running a genetic stop sign accelerates oxygen metabolism and energy production in horses.Science (New York, N.Y.) · 2025Article
- CRISPRi-ART enables functional genomics of diverse bacteriophages using RNA-binding dCas13d.Nature microbiology · 2025Article
- Evolutionary diversification and succession of soil huge phages in glacier foreland.Microbiome · 2025Article
- Sphae: an automated toolkit for predicting phage therapy candidates from sequencing data.Bioinformatics advances · 2025Article
- phage therapy candidates from Sphae: An automated toolkit for predicting sequencing data.bioRxiv : the preprint server for biology · 2024Article
Corrections and comments
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Authors and funding
9 authors at 4 institutions in 3 countries.
Funding
Abstract
Bacteriophages (phages) are obligate parasites that use host bacterial translation machinery to produce viral proteins. However, some phages have alternative genetic codes with reassigned stop codons that are predicted to be incompatible with bacterial translation systems. We analysed 9,422 phage genomes and found that stop-codon recoding has evolved in diverse clades of phages that infect bacteria present in both human and animal gut microbiota. Recoded stop codons are particularly over-represented in phage structural and lysis genes. We propose that recoded stop codons might function to prevent premature production of late-stage proteins. Stop-codon recoding has evolved several times in closely related lineages, which suggests that adaptive recoding can occur over very short evolutionary timescales.
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