Evidence map›Paper›PMID 42026131›Full record

ArticleNature biotechnology2026

Genome editing of phylogenetically distinct bacteria using cross-species retron-mediated recombineering.

Alejandro González-Delgado, Laura Bonillo-Lopez, Milo S Johnson, Nastassia Knödlseder, Ching-Chung Ko, Yassir Lekbach, Jee-Hwan Oh, Hemaa Selvakumar, Michael C Wold, Zihan Yu and 9 more

Abstract read
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In one paragraph

Article in Nature biotechnology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Review
  2. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

19 authors.

Alejandro González-DelgadoGladstone Institute of Data Science and Biotechnology, San Francisco, CA, USA. alejandro.gonzalez@gladstone.ucsf.edu.ORCID http://orcid.org/0000-0002-8357-3204
Laura Bonillo-LopezUnitat Mixta d'Investigació IRTA-UAB en Sanitat Animal, Centre de Recerca en Sanitat Animal (CReSA), Campus de la Universitat Autònoma de Barcelona (UAB), Bellaterra, Spain.ORCID http://orcid.org/0009-0003-8442-124X
Milo S JohnsonDepartment of Integrative Biology, University of California Berkeley, Berkeley, CA, USA.
Nastassia KnödlsederDepartment of Medicine and Life Sciences, Universitat Pompeu Fabra, Barcelona, Spain.ORCID http://orcid.org/0000-0001-7214-6306
Ching-Chung KoDepartment of Biological Sciences, University of Pittsburgh, Pittsburgh, PA, USA.ORCID http://orcid.org/0000-0002-8950-7128
Yassir LekbachMcKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, TX, USA.
Jee-Hwan OhDepartment of Food Science, 1605 Linden Dr, University of Wisconsin-Madison, Madison, WI, USA.ORCID http://orcid.org/0000-0001-9033-8539
Hemaa SelvakumarEnvironmental Genomics and Systems Biology Division, E.O. Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID http://orcid.org/0009-0008-8329-3385
Michael C WoldBioTechnology Institute, University of Minnesota-Twin Cities, St. Paul, MN, USA.
Zihan YuMcKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, TX, USA.ORCID http://orcid.org/0009-0009-2087-9001
Virginia AragónUnitat Mixta d'Investigació IRTA-UAB en Sanitat Animal, Centre de Recerca en Sanitat Animal (CReSA), Campus de la Universitat Autònoma de Barcelona (UAB), Bellaterra, Spain.ORCID http://orcid.org/0000-0002-3470-6015
Jeffrey A GralnickBioTechnology Institute, University of Minnesota-Twin Cities, St. Paul, MN, USA.ORCID http://orcid.org/0000-0001-9250-7770
Marc GüellDepartment of Medicine and Life Sciences, Universitat Pompeu Fabra, Barcelona, Spain.ORCID http://orcid.org/0000-0003-4000-7912
Graham F HatfullDepartment of Biological Sciences, University of Pittsburgh, Pittsburgh, PA, USA.ORCID http://orcid.org/0000-0002-6705-6821
Benjamin K KeitzMcKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, TX, USA.
Britt KoskellaDepartment of Integrative Biology, University of California Berkeley, Berkeley, CA, USA.
Vivek K MutalikEnvironmental Genomics and Systems Biology Division, E.O. Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Jan-Peter van PijkerenDepartment of Food Science, 1605 Linden Dr, University of Wisconsin-Madison, Madison, WI, USA.
Seth L ShipmanGladstone Institute of Data Science and Biotechnology, San Francisco, CA, USA. seth.shipman@gladstone.ucsf.edu.ORCID http://orcid.org/0000-0003-3130-8043

Funding

National Science Foundation (NSF) MCB 2137692
6 · The paper itself

Abstract

Advanced genome editing technologies have enabled rapid, flexible rewriting of the Escherichia coli genome, but most have not been tested in other bacterial species. Recombitrons-a genome editing tool created by pairing modified, donor-producing bacterial retrons with single-stranded binding and annealing proteins-have increased the efficiency of recombineering to install flexible, precise edits in the prokaryotic chromosome. Here, to extend their utility outside of E. coli, we surveyed the portability and versatility of retron-mediated recombineering across three different bacterial phyla (Proteobacteria, Bacillota and Actinomycetota) and a total of 15 different species. We found that retron recombineering is variable across the species tested but functional in all of them, reaching editing efficiencies >20% in six of them, >40% in three and >90% in two. Efficiencies in the remaining nine species ranged from 0.015% to 7.4%. We also tested the extension of the recombitron architecture, operon and strain modifications in a subset of hosts in which species-specific modifications were required to increase editing rates.

Identifiers

PMID42026131

What OpenQuestion holds

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Registered trials

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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.