ArticleNature2016
Rates and mechanisms of bacterial mutagenesis from maximum-depth sequencing.
Article in Nature, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 76 papers.
What it found
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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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
76 citing papers in PubMed, 164 citations in OpenAlex.
- Single-Cell Membrane-Permeabilization Kinetics Reveal Species-Specific Responses to Antimicrobial Photodynamic Treatment.ACS omega · 2026Article
- Stress-Driven Accelerated Evolution and Ecological Network Reconfiguration in Extremophilic Microbial Communities.Biology · 2026Review
- Profiling KRAS mutations in whole blood by error-corrected maximum depth sequencing.NPJ precision oncology · 2026Article
- Heterologous expression in E. coli reveals that bicarbonate transporter BicA2 mediates carbon uptake in marine Prochlorococcus spp.The ISME journal · 2026Article
- The role of environmental stress in promoting mutators through evolutionary rescue: quantitative predictions.Genetics · 2025Article
- Article
- De novo rates of aProceedings of the National Academy of Sciences of the United States of America · 2025Article
- Within-host bacterial evolution and the emergence of pathogenicity.Nature microbiology · 2025Review
- Protein overabundance is driven by growth robustness.bioRxiv : the preprint server for biology · 2025Article
- Hotspots of genetic change in Yersinia pestis.Nature communications · 2025Article
- An extreme mutational hotspot in nlpD depends on transcriptional induction of rpoS.PLoS genetics · 2025Article
- SNPraefentia: a toolkit to prioritize microbial genome variants linked to health and disease.Bioinformatics advances · 2025Article
- Antibiotic resistance mediated by gene amplifications.npj antimicrobials and resistance · 2024Review
- Strainy: phasing and assembly of strain haplotypes from long-read metagenome sequencing.Nature methods · 2024Article
- Human DNA polymerase ε is a source of C>T mutations at CpG dinucleotides.Nature genetics · 2024Article
- How antisense transcripts can evolve to encode novel proteins.Nature communications · 2024Article
- Modeling Length Changes in De Novo Open Reading Frames during Neutral Evolution.Genome biology and evolution · 2024Article
- Environmental and genetic influence on the rate and spectrum of spontaneous mutations inMicrobiology (Reading, England) · 2024Article
- Native plants change the endophyte assembly and growth of an invasive plant in response to climatic factors.Applied and environmental microbiology · 2023Article
- Twistedly hydrophobic basis with suitable aromatic metrics in covalent organic networks govern micropollutant decontamination.Nature communications · 2023Article
16 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors at 2 institutions in 1 country.
Funding
Abstract
In 1943, Luria and Delbrück used a phage-resistance assay to establish spontaneous mutation as a driving force of microbial diversity. Mutation rates are still studied using such assays, but these can only be used to examine the small minority of mutations conferring survival in a particular condition. Newer approaches, such as long-term evolution followed by whole-genome sequencing, may be skewed by mutational ‘hot’ or ‘cold’ spots. Both approaches are affected by numerous caveats. Here we devise a method, maximum-depth sequencing (MDS), to detect extremely rare variants in a population of cells through error-corrected, high-throughput sequencing. We directly measure locus-specific mutation rates in Escherichia coli and show that they vary across the genome by at least an order of magnitude. Our data suggest that certain types of nucleotide misincorporation occur 10(4)-fold more frequently than the basal rate of mutations, but are repaired in vivo. Our data also suggest specific mechanisms of antibiotic-induced mutagenesis, including downregulation of mismatch repair via oxidative stress, transcription–replication conflicts, and, in the case of fluoroquinolones, direct damage to DNA.
Indexed as
Identifiers
What OpenQuestion holds
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.