Evidence map›Paper›PMID 39779901›Full record

ArticleNature chemical biology2025

Population-level amplification of gene regulation by programmable gene transfer.

Hye-In Son, Grayson S Hamrick, Ashwini R Shende, Kyeri Kim, Kaichun Yang, Tony Jun Huang, Lingchong You

Abstract read
In one paragraph

Article in Nature chemical biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing 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

5 citing papers in PubMed.

  1. Article
  2. Programming Next-Generation Synthetic Biosensors by Genetic Circuit Design.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026
    Review
  3. Article
  4. Article
  5. Article
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

7 authors.

Hye-In SonDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.
Grayson S HamrickDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.ORCID http://orcid.org/0000-0002-3149-538X
Ashwini R ShendeDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.
Kyeri KimDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.ORCID http://orcid.org/0000-0003-1503-9090
Kaichun YangDepartment of Mechanical Engineering and Materials Science, Duke University, Durham, NC, USA.
Tony Jun HuangDepartment of Mechanical Engineering and Materials Science, Duke University, Durham, NC, USA.
Lingchong YouDepartment of Biomedical Engineering, Duke University, Durham, NC, USA. you@duke.edu.ORCID http://orcid.org/0000-0003-3725-4007

Funding

Tradeoffs between fitness costs and transfer rates in horizontal gene transferR01AI125604 · NIAID · DUKE UNIVERSITY · PI LINGCHONG YOU · 2017 to 2026
$3.3M
Targeted control of self-transmissible plasmids by using engineered interfering plasmidsR01EB031869 · NIBIB · DUKE UNIVERSITY · PI YOU, LINGCHONG · 2021 to 2024
$1.5M
NIAID NIH HHS R01 AI125604NIBIB NIH HHS R01 EB031869U.S. Department of Health & Human Services | National Institutes of Health (NIH) R01EB031869
6 · The paper itself

Abstract

Engineering cells to sense and respond to environmental cues often focuses on maximizing gene regulation at the single-cell level. Inspired by population-level control mechanisms like the immune response, we demonstrate dynamic control and amplification of gene regulation in bacterial populations using programmable plasmid-mediated gene transfer. By regulating plasmid loss rate, transfer rate and fitness effects via Cas9 endonuclease, F conjugation machinery and antibiotic selection, we modulate the fraction of plasmid-carrying cells, serving as an amplification factor for single-cell-level regulation. This approach expands the dynamic range of gene expression and allows orthogonal control across populations. Our platform offers a versatile strategy for dynamically regulating gene expression in engineered microbial communities.

Indexed as

Escherichia coliGene Expression Regulation, BacterialGene Transfer TechniquesCRISPR-Cas SystemsPlasmids

Identifiers

PMID39779901
PMCPMC12599128

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

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.