PhD Study : Molecular dissection of key bacterial biofilm development processes using MSI and advanced imaging

Summary

Bacteria can grow in multicellular structures called biofilms, that protect them from antibiotics. This is particularly problematic in chronic wound infections, as it complicates treatment and leads to amputation – 8000 chronic wound patients undergo amputations each year, costing the NHS >£3bn annually. Additional information on the mechanisms controlling biofilm development, and a means of disrupting this process is urgently required. Numerous proteins are associated with biofilm formation and are present on the surface of bacteria. We need to identify them in order to design rational strategies to prevent biofilm formation.

In this project, biofilm development in Pseudomonas aeruginosa, a common wound pathogen, will be assessed and characterised using a novel multi-disciplinary approach. A combination of state of the art imaging modalities, (electron, confocal and atomic force microscopy) will allow visualisation and characterisation of the ultrastructure of biofilms grown under different conditions in our in house chronic wound model. Then, the same sample and field of view will be presented for mass spectrometry imaging, allowing identification and localisation of the proteins involved. Pathway screening will be conducted to identify the biological role these molecules play in biofilm formation.

Further characterisation of the biofilm proteome will be conducted using in-solution LC-MSn shotgun proteomics. This will identify key cell-surface proteins involved in biofilm development and persistence A comprehensive characterisation of key components in the chronic wound biofilm will facilitate the rational design of next generation anti-biofilm compounds.  For example, dnaK, the molecular chaperone, is involved in biofilm development, and peptide inhibitors of this chaperone are available, giving the potential to elucidate, initially, the consequences of inhibiting dnaK in chronic wound biofilms as a novel therapeutic by disrupting the bacterial stress response.  Other anti-biofilm agents will be applied and tested during biofilm development to determine a fuller picture of the process, and its inhibition.

Please note: Applications for more than one PhD studentship are welcome, however if you apply for more than one PhD project within Biomedical Sciences, your first application on the system will be deemed your first-choice preference and further applications will be ordered based on the sequential time of submission. If you are successfully shortlisted, you will be interviewed only on your first-choice application and ranked accordingly. Those ranked highest will be offered a PhD studentship. In the situation where you are ranked highly and your first-choice project is already allocated to someone who was ranked higher than you, you may be offered your 2nd or 3rd choice project depending on the availability of this project.

Essential criteria

Applicants should hold, or expect to obtain, a First or Upper Second Class Honours Degree in a subject relevant to the proposed area of study.

We may also consider applications from those who hold equivalent qualifications, for example, a Lower Second Class Honours Degree plus a Master’s Degree with Distinction.

In exceptional circumstances, the University may consider a portfolio of evidence from applicants who have appropriate professional experience which is equivalent to the learning outcomes of an Honours degree in lieu of academic qualifications.

• Sound understanding of subject area as evidenced by a comprehensive research proposal
• Clearly defined research proposal detailing background, research questions, aims and methodology

Desirable Criteria

If the University receives a large number of applicants for the project, the following desirable criteria may be applied to shortlist applicants for interview.

• Completion of Masters at a level equivalent to commendation or distinction at Ulster
• Experience using research methods or other approaches relevant to the subject domain
• Work experience relevant to the proposed project
• Publications record appropriate to career stage
• Experience of presentation of research findings
• A comprehensive and articulate personal statement
• Relevant professional qualification and/or a Degree in a Health or Health related area

Funding and eligibility

The University offers the following levels of support:

Vice Chancellors Research Studentship (VCRS)

The following scholarship options are available to applicants worldwide:

• Full Award: (full-time tuition fees + £19,000 (tbc))
• Part Award: (full-time tuition fees + £9,500)
• Fees Only Award: (full-time tuition fees)

These scholarships will cover full-time PhD tuition fees for three years (subject to satisfactory academic performance) and will provide a £900 per annum research training support grant (RTSG) to help support the PhD researcher.

Applicants who already hold a doctoral degree or who have been registered on a programme of research leading to the award of a doctoral degree on a full-time basis for more than one year (or part-time equivalent) are NOT eligible to apply for an award.

Please note: you will automatically be entered into the competition for the Full Award, unless you state otherwise in your application.

Department for the Economy (DFE)

The scholarship will cover tuition fees at the Home rate and a maintenance allowance of £19,000 (tbc) per annum for three years (subject to satisfactory academic performance).

This scholarship also comes with £900 per annum for three years as a research training support grant (RTSG) allocation to help support the PhD researcher.

• Candidates with pre-settled or settled status under the EU Settlement Scheme, who also satisfy a three year residency requirement in the UK prior to the start of the course for which a Studentship is held MAY receive a Studentship covering fees and maintenance.
• Republic of Ireland (ROI) nationals who satisfy three years’ residency in the UK prior to the start of the course MAY receive a Studentship covering fees and maintenance (ROI nationals don’t need to have pre-settled or settled status under the EU Settlement Scheme to qualify).
• Other non-ROI EU applicants are ‘International’ are not eligible for this source of funding.
• Applicants who already hold a doctoral degree or who have been registered on a programme of research leading to the award of a doctoral degree on a full-time basis for more than one year (or part-time equivalent) are NOT eligible to apply for an award.

Due consideration should be given to financing your studies. Further information on cost of living