ArticleProceedings of the National Academy of Sciences of the United States of America2014
Multiplex genome editing by natural transformation.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 141 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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
141 citing papers in PubMed, 251 citations in OpenAlex.
- Surviving phage attack primes bacterial immunity to defeat counterdefenses.bioRxiv : the preprint server for biology · 2026Article
- A biofilm-derived peptide as an underwater adhesive.bioRxiv : the preprint server for biology · 2026Article
- Conformational dynamics of exopolysaccharides underlie biofilm matrix mechanics inbioRxiv : the preprint server for biology · 2026Article
- Structural modeling reveals the mechanism of motor ATPase coordination during type IV pilus retraction.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Article
- The stoichiometry of minor-to-major pilins regulates the dynamic activity of the type IVa competence pilus in Vibrio cholerae.PLoS genetics · 2026Article
- A branching cell-fate decision in biofilm dispersal enables long-term surface persistence.bioRxiv : the preprint server for biology · 2026Article
- Conformations and sequence determinants in the lipid binding of an adhesive peptide derived from Vibrio cholerae biofilms.PLoS pathogens · 2026Article
- Altering chemotaxis as a strategy to enhance the foraging range of motility-restricted bacteria.Communications biology · 2026Article
- Diet modulates Vibrio cholerae colonization and competitive outcomes with the gut microbiota.Cell host & microbe · 2025Article
- Structures of the sheathed flagellum reveal mechanisms of assembly and rotation in Vibrio cholerae.Nature microbiology · 2025Article
- Unraveling the Prevalence and Multifaceted Roles of Accessory Peptide Deformylases in Bacterial Adaptation and Resistance.Molecular biology and evolution · 2025Article
- Bacterial natural transformation drives cassette shuffling and simplifies recombination in chromosomal integrons.Nucleic acids research · 2025Article
- ComK-induced cell death is reversed by upregulating the SigB or Spx pathway inMicrobiology spectrum · 2025Article
- ThemBio · 2025Article
- Expanding genetic engineering capabilities in Vibrio natriegens with the Vnat Collection.Nucleic acids research · 2025Article
- DNA repair is essential forJournal of bacteriology · 2025Article
- DprA recruits ComM to facilitate recombination during natural transformation in Gram-negative bacteria.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- In Vivo Nitrosative Stress-Induced Expression of a Photolyase Promotes Vibrio cholerae Environmental Blue Light Resistance.Molecular microbiology · 2025Article
- The molecular basis for DNA-binding by competence T4P is distinct in a representative Gram-positive and Gram-negative species.PLoS pathogens · 2025Article
81 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
3 authors at 1 institution in 1 country.
Funding
Abstract
Editing bacterial genomes is an essential tool in research and synthetic biology applications. Here, we describe multiplex genome editing by natural transformation (MuGENT), a method for accelerated evolution based on the cotransformation of unlinked genetic markers in naturally competent microorganisms. We found that natural cotransformation allows scarless genome editing at unprecedented frequencies of ∼50%. Using DNA substrates with randomized nucleotides, we found no evidence for bias during natural cotransformation, indicating that this method can be used for directed evolution studies. Furthermore, we found that natural cotransformation is an effective method for multiplex genome editing. Because MuGENT does not require selection at edited loci in cis, output mutant pools are highly complex, and strains may have any number and combination of the multiplexed genome edits. We demonstrate the utility of this technique in metabolic and phenotypic engineering by optimizing natural transformation in Vibrio cholerae. This was accomplished by combinatorially editing the genome via gene deletions and promoter replacements and by tuning translation initiation of five genes involved in the process of natural competence and transformation. MuGENT allowed for the generation of a complex mutant pool in 1 wk and resulted in the selection of a genetically edited strain with a 30-fold improvement in natural transformation. We also demonstrate the efficacy of this technique in Streptococcus pneumoniae and highlight the potential for MuGENT to be used in multiplex genetic interaction analysis. Thus, MuGENT is a broadly applicable platform for accelerated evolution and genetic interaction studies in diverse naturally competent species.
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.