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Utilising large-scale microbiome analysis and machine learning to enhance early diagnosis and treatment of urinary tract infection in post-kidney transplant patients

School of Pharmacy | PHD
Funding
Funded
Reference Number
PMY/2251/SK2
Application Deadline
28 February 2025
Start Date
1 October 2025

Overview

Infection following kidney transplant surgery represents an important healthcare problem, with colonisation of medical devices such as ureteric stents of particular concern. Recent research has suggested the microbiome may play a critical role in determining the successful outcome of renal transplantation. Despite these advances, much is still unknown about the relationships between the renal-associated microbiome and health outcomes, such as infection development, in kidney transplant patients. The successful candidate will join a dynamic research group focused on the analysis and functional characterisation of microbiomes from clinical settings, to help investigate the link between the microbiome and infectious disease following kidney transplantation. This project builds on an exciting collaboration between the School of Pharmacy and renal transplant clinicians in Belfast City Hospital. Project aims will be achieved using a combination of DNA extraction and sequence analysis using bioinformatic methods, alongside basic microbiology and culture-based techniques for the cultivation and characterisation of clinically-relevant microorganisms. The project will involve a large patient study, analysing the impact of both the gut and urinary tract microbiomes on health outcomes following renal transplantation. This will primarily focus on the development on infection and molecular diagnostic tools to help predict infection onset and optimise treatment choices for urinary tract infections. Applicants should have a keen interest in learning basic bioinformatics techniques to analyse large genomic datasets to improve healthcare outcomes. Full technical training will be provided, with opportunities to attend international conferences in the research area, ensuring the successful candidate is well prepared for a career in a variety of sectors.

The successful candidate will be trained in microbiology, including both culture-dependent and independent approaches, molecular biology techniques including molecular cloning, and microbial bioinformatics for analysis of large DNA datasets, as well as project management and data analysis training. Training received during this studentship will ensure the successful candidate possesses a comprehensive skillset, of high relevance to a career in a clinical microbiology setting, industry or in academia.

Attendance at international conferences, including the opportunity for conference presentations. A keen interest is expected in publishing in international, peer-reviewed journals. Important clinical collaboration opportunities and potential application of novel discoveries.

Funding Information

Deadline for applications 28/02/2025.

Covered by funding: Fees, consumables, student stipend.

Project Summary
Supervisor

Dr Stephen Kelly.


Funding Body
Kidney Research UK
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