Dataset for “Why AGG is associated with high transgene output: passenger effects and their implications for transgene design”

In bacteria, high A and low G content of the 5′ end of the coding sequence (CDS) promotes low RNA stability, facilitating ribosomal initiation and subsequently a high protein to transcript ratio. Additionally, 5′ NGG codons are suppressive owing to peptidyl-tRNA drop off. It was, therefore, surprising that the first large-scale transgene experiment to interrogate the 5′ effect by codon randomization found the NGG, G-rich codon AGG to be the most associated with high transgene output.

In this study we show that this is not replicated in other large transgene datasets, where AGG and NGG are associated with low efficiency. More generally, there is limited agreement between the first experiment and others. This we find to be a consequence of non-random construct design. The results of this research have implications for both transgene and experimental design.

Keywords:

AGG high transgene output passenger effects transgene design codon usage

Cite this dataset as:
Daniels, K., Radrizzani, S., Hurst, L., 2025. Dataset for “Why AGG is associated with high transgene output: passenger effects and their implications for transgene design”. Zenodo. Available from: https://doi.org/10.5281/zenodo.15084715.

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Creators

Kate G. Daniels
University of Bath

Sofia Radrizzani
University of Bath

0000-0003-0834-8151

Laurence Hurst
University of Bath

0000-0002-1002-1054

Contributors

University of Bath
Rights Holder

Documentation

Data collection method:

Please see the associated paper.

Funders

Evolution Education Trust

Publication details

Publication date: 27 March 2025
by: Zenodo

Version: 1

DOI: https://doi.org/10.5281/zenodo.15084715

URL for this record: https://researchdata.bath.ac.uk/1569

Related papers and books

Daniels, K. G., Radrizzani, S., and Hurst, L. D., 2025. Why AGG is associated with high transgene output: passenger effects and their implications for transgene design. NAR Genomics and Bioinformatics, 7(2). Available from: https://doi.org/10.1093/nargab/lqaf086.

Contact information

Please contact the Research Data Service in the first instance for all matters concerning this item.

Contact person: Sofia Radrizzani

Departments:

Faculty of Science
Life Sciences

Research Centres & Institutes
Centre for Mathematical Biology
Milner Centre for Evolution