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Peer-reviewedCC BYNature communications

Characterization of recombinase-based genetic parts and circuits using nanopore sequencing.

  • F Veronica Greco1,2
  • Sarah K Cameron1,3
  • Shivang Hina-Nilesh Joshi1
  • Sarah Guiziou4
  • Jennifer A N Brophy5,6
  • Claire S Grierson1
  • Thomas E Gorochowski7
7 affiliations
  1. 1School of Biological Sciences, University of Bristol, Bristol, UK.
  2. 2CDotBio Ltd, Future Space, Bristol, UK.
  3. 3Department of Life Sciences, University of Bath, Bath, UK.
  4. 4Earlham Institute, Norwich Research Park, Norwich, UK.
  5. 5Department of Bioengineering, Stanford University, Stanford, CA, USA.
  6. 6Howard Hughes Medical Institute, Stanford, CA, USA.
  7. 7School of Biological Sciences, University of Bristol, Bristol, UK. [email protected].
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Abstract

Recombinases are versatile enzymes able to perform the precise insertion, deletion, and rearrangement of DNA and can act as a foundation for programmable genetic logic and memory. Crucial for their use are accurate measurements of function. However, these are often laborious, time-consuming, and costly to collect. To address this, we develop a semi-automated workflow that combines low-cost liquid handling robotics, multiplexed long-read nanopore sequencing, and a supporting computational analysis tool to enable the high-throughput and detailed characterization of recombinase parts and circuits when used in a variety of contexts and organisms. Our approach overcomes the limitations of typically used fluorescence-based assays and is able to monitor temporal dynamics, observe structural changes at nucleotide resolution, and unravel the internal workings of complex multi-state circuits. The ability to scale up and automate genetic circuit characterization is an essential step towards more rigorous biological metrology that can support the construction of predictive models for efficiently engineering biology.

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Cite

BibTeXRIS
BibTeX
@article{greco2026characterization,
  title = {{Characterization of recombinase-based genetic parts and circuits using nanopore sequencing.}},
  author = {F Veronica Greco and Sarah K Cameron and Shivang Hina-Nilesh Joshi and Sarah Guiziou and Jennifer A N Brophy and Claire S Grierson and Thomas E Gorochowski},
  journal = {Nature communications},
  year = {2026},
  month = sep,
  doi = {10.1038/s41467-026-77605-x},
  url = {https://europepmc.org/article/MED/42901886},
  note = {CC BY},
}
RIS
TY  - JOUR
TI  - Characterization of recombinase-based genetic parts and circuits using nanopore sequencing.
AU  - F Veronica Greco
AU  - Sarah K Cameron
AU  - Shivang Hina-Nilesh Joshi
AU  - Sarah Guiziou
AU  - Jennifer A N Brophy
AU  - Claire S Grierson
AU  - Thomas E Gorochowski
PY  - 2026
DA  - 2026/09/18
JO  - Nature communications
DO  - 10.1038/s41467-026-77605-x
UR  - https://europepmc.org/article/MED/42901886
AB  - Recombinases are versatile enzymes able to perform the precise insertion, deletion, and rearrangement of DNA and can act as a foundation for programmable genetic logic and memory. Crucial for their use are accurate measurements of function. However, these are often laborious, time-consuming, and costly to collect. To address this, we develop a semi-automated workflow that combines low-cost liquid handling robotics, multiplexed long-read nanopore sequencing, and a supporting computational analysis tool to enable the high-throughput and detailed characterization of recombinase parts and circuits when used in a variety of contexts and organisms. Our approach overcomes the limitations of typically used fluorescence-based assays and is able to monitor temporal dynamics, observe structural changes at nucleotide resolution, and unravel the internal workings of complex multi-state circuits. The ability to scale up and automate genetic circuit characterization is an essential step towards more rigorous biological metrology that can support the construction of predictive models for efficiently engineering biology.
SN  - 2041-1723
ER  -