Journal article

G-quadruplex structures bind to EZ-Tn5 transposase

Simone L Cree, Eng Wee Chua, Jennifer Crowther, Renwick CJ Dobson, Martin A Kennedy

Biochimie | ELSEVIER FRANCE-EDITIONS SCIENTIFIQUES MEDICALES ELSEVIER | Published : 2020

Abstract

Next generation DNA sequencing and analysis of amplicons spanning the pharmacogene CYP2D6 suggested that the Nextera transposase used for fragmenting and providing sequencing priming sites displayed a targeting bias. This manifested as dramatically lower sequencing coverage at sites in the amplicon that appeared likely to form G-quadruplex structures. Since secondary DNA structures such as G-quadruplexes are abundant in the human genome, and are known to interact with many other proteins, we further investigated these sites of low coverage. Our investigation revealed that G-quadruplex structures are formed in vitro within the CYP2D6 pharmacogene at these sites, and G-quadruplexes can interac..

View full abstract

Grants

Funding Acknowledgements

We are grateful to the Biomolecular Interaction Centre, University of Canterbury, Christchurch, New Zealand for access to CD spectroscopy, BLItz system and SPR. This work was supported by the Marsden Fund Council from New Zealand Government funding, administered by the Royal Society of New Zealand.