Evidence map›Paper›PMID 39789078›Full record

ArticleScientific reports2025

A CRISPR-Cas9 system protecting E. coli against acquisition of antibiotic resistance genes.

Danna Lee, Petra Muir, Sara Lundberg, August Lundholm, Linus Sandegren, Sanna Koskiniemi

Abstract read
In one paragraph

Article in Scientific reports, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.

0numbers the graph read from it
0cells of the map it votes in
17citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

17 citing papers in PubMed.

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  5. Molecular kinetics dictate population dynamics in CRISPR-based plasmid defense.Proceedings of the National Academy of Sciences of the United States of America · 2026
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  15. Advances in CRISPR/Cas9-Based Gene Editing in Filamentous Fungi.Journal of fungi (Basel, Switzerland) · 2025
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Danna Lee *Department of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden.
Petra Muir *Department of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden.
Sara LundbergDepartment of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden.
August LundholmDepartment of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden.
Linus SandegrenDepartment of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden. linus.sandegren@imbim.uu.se.
Sanna KoskiniemiDepartment of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden. sanna.koskiniemi@icm.uu.se.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Antimicrobial resistance (AMR) is an increasing problem worldwide, and new treatment options for bacterial infections are direly needed. Engineered probiotics show strong potential in treating or preventing bacterial infections. However, one concern with the use of live bacteria is the risk of the bacteria acquiring genes encoding for AMR or virulence factors through horizontal gene transfer (HGT), and the transformation of the probiotic into a superbug. Therefore, we developed an engineered CRISPR-Cas9 system that protects bacteria from horizontal gene transfer. We synthesized a CRISPR locus targeting eight AMR genes and cloned this with the Cas9 and transacting tracrRNA on a medium copy plasmid. We next evaluated the efficiency of the system to block HGT through transformation, transduction, and conjugation. Our results show that expression of the CRISPR-Cas9 system successfully protects E. coli MG1655 from acquiring the targeted resistance genes by transformation or transduction with 2-3 logs of protection depending on the system for transfer and the target gene. Furthermore, we show that the system blocks conjugation of a set of clinical plasmids, and that the system is also able to protect the probiotic bacterium E. coli Nissle 1917 from acquiring AMR genes.

Indexed as

CRISPR-Cas SystemsEscherichia coliAnti-Bacterial AgentsConjugation, GeneticDrug Resistance, BacterialGene Transfer, HorizontalPlasmidsAnti-Bacterial Agents

Identifiers

PMID39789078
PMCPMC11718013

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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.