Genome Sequencing Antimicrobial Resistance

Using genome sequencing to mitigate antimicrobial resistance

August 2018

This project was a continuation of preliminary work on the detection times of coloured substrates which indicated the presence of coliforms could be significantly improved compared to current  selective media solutions/protocols.  This consisted of laboratory testing and a pilot field study in Tanzania. Due to funding from the Newton Trust this project was able to complete its aim to determine the genetic basis of antimicrobial resistance and to build a predictive tool of antimicrobial resistance phenotype from whole genome sequencing data.

There were two stages of this project: firstly the development of rigorous bacterial characterisation methodology using known fully characterised environmental and lab reference strains, aligned for low-cost hardware. Secondly, assessment of performance in field condition through the collection and screening of environmental samples working with collaborators in Tanzania, India and the UK.

Results from this project will be incorporated into future designs of low-cost optical systems and has aided in the development of key knowledge, and publication of scientific pacers which are relevant to the diagnostic and microbiology field. The project was also fundamental to strengthening research ties between WaterScope and University of Cambridge Department of Veterinary Medicine in order to target funding opportunities in low and middle income countries.