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Seeking critical branch points in bacterial evolution with comparative genomics

This is a bioinformatics and comparative genomics-focussed project, seeking to identify the basis of speciation and sub-speciation of bacterial species accounting for the development of individual and independent lineages. There are now enough genomes available, and new (in-house) methods have been developed to maximize the capability for comparing common (core) shared genes, gene variants within core genes, accessory genes (those present in just some cells), as well as other markers.

The goal is to use a ‘molecular archaeology’ concept and comparison of strains in particular lineages, underpinned by analyses using new robust methods for determining evolutionary / phylogenetic population structures, to identify the distinctive features of independently evolving lineages and sub-population, with the deeper question of trying to identify critical steps that create these lineages. In other words to identify what are the events at these critical branch points, to address a fundamental question in evolutionary bacterial biology.

This is not only of interest for understanding key parts of the progression of evolution, but also for the exploration of differences associated with clusters of pathogenic bacteria with greater and lesser capabilities to cause infection, infections of different types, have different host associations, and greater abilities to develop antibiotic resistance.

This project would suit candidates interested in evolutionary biology and bioinformatics.

There are options within this project for a purely computational project, or to develop experimental sequencing and other ‘wet work’ laboratory project work. 

How to apply

If you are interested in applying for the above PhD topic please follow the steps below:

  1. Contact the supervisor by email or phone to discuss your interest and find out if you would be suitable. Supervisor details can be found on this topic page. The supervisor will guide you in developing the topic-specific research proposal, which will form part of your application.
  2. Click on the 'Apply here' button on this page and you will be taken to the relevant PhD course page, where you can apply using an online application.
  3. Complete the online application indicating your selected supervisor and include the research proposal for the topic you have selected.

Good luck!

This is a self funded topic

If a project including laboratory work was pursued, then this would be associated with additional ‘experimental cost bench fees’ of around £6,000 per annum).