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

Publication ,  Journal Article
Son, H-I; Hamrick, GS; Shende, AR; Kim, K; Yang, K; Huang, TJ; You, L
Published in: Nature chemical biology
June 2025

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.

Duke Scholars

Published In

Nature chemical biology

DOI

EISSN

1552-4469

ISSN

1552-4450

Publication Date

June 2025

Volume

21

Issue

6

Start / End Page

939 / 948

Related Subject Headings

  • Plasmids
  • Gene Transfer Techniques
  • Gene Expression Regulation, Bacterial
  • Escherichia coli
  • CRISPR-Cas Systems
  • Biochemistry & Molecular Biology
  • 3404 Medicinal and biomolecular chemistry
  • 3101 Biochemistry and cell biology
  • 0601 Biochemistry and Cell Biology
  • 0304 Medicinal and Biomolecular Chemistry
 

Citation

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Son, H.-I., Hamrick, G. S., Shende, A. R., Kim, K., Yang, K., Huang, T. J., & You, L. (2025). Population-level amplification of gene regulation by programmable gene transfer. Nature Chemical Biology, 21(6), 939–948. https://doi.org/10.1038/s41589-024-01817-9
Son, Hye-In, Grayson S. Hamrick, Ashwini R. Shende, Kyeri Kim, Kaichun Yang, Tony Jun Huang, and Lingchong You. “Population-level amplification of gene regulation by programmable gene transfer.Nature Chemical Biology 21, no. 6 (June 2025): 939–48. https://doi.org/10.1038/s41589-024-01817-9.
Son H-I, Hamrick GS, Shende AR, Kim K, Yang K, Huang TJ, et al. Population-level amplification of gene regulation by programmable gene transfer. Nature chemical biology. 2025 Jun;21(6):939–48.
Son, Hye-In, et al. “Population-level amplification of gene regulation by programmable gene transfer.Nature Chemical Biology, vol. 21, no. 6, June 2025, pp. 939–48. Epmc, doi:10.1038/s41589-024-01817-9.
Son H-I, Hamrick GS, Shende AR, Kim K, Yang K, Huang TJ, You L. Population-level amplification of gene regulation by programmable gene transfer. Nature chemical biology. 2025 Jun;21(6):939–948.

Published In

Nature chemical biology

DOI

EISSN

1552-4469

ISSN

1552-4450

Publication Date

June 2025

Volume

21

Issue

6

Start / End Page

939 / 948

Related Subject Headings

  • Plasmids
  • Gene Transfer Techniques
  • Gene Expression Regulation, Bacterial
  • Escherichia coli
  • CRISPR-Cas Systems
  • Biochemistry & Molecular Biology
  • 3404 Medicinal and biomolecular chemistry
  • 3101 Biochemistry and cell biology
  • 0601 Biochemistry and Cell Biology
  • 0304 Medicinal and Biomolecular Chemistry