University of Exeter funding: SWBio DTP PhD studentship

Mathematical modelling of actin in animals and plants. PhD in Mathematics (SWBio DTP) Ref: 3721

About the award

Supervisors

Lead Supervisor  

Dr David Richards, Department of Mathematics, College of Engineering, Mathematics and Physical Sciences, University of Exeter

Additional Supervisors

Dr Michael Deeks , Department of Biosciences, College of Life and Environmental Sciences, University of Exeter

Professor Harry Mellor, School of Biochemistry, University of Bristol

Dr Imogen Sparkes, School of Biological Sciences, University of Bristol

Dr Helen Dawe, Department of Biosciences, College of Life and Environmental Sciences, University of Exeter

Prof Kim Hammond-Kosack, Rothamsted Research

Dr Kirsty Wan, Department of Mathematics, College of Engineering, Mathematics and Physical Sciences, University of Exeter

Location:  University of Exeter, Streatham Campus, Exeter, EX4 4QJ

Programme Overview

The South West Biosciences Doctoral Training Partnership (SWBio DTP) is led by the University of Bristol, together with the Universities of Bath, Cardiff and Exeter, alongside Rothamsted Research.  This partnership also includes the following collaborative partners; Marine Biological Association (MBA), Plymouth Marine Laboratory (PML), Swansea University, UCB Pharma, University of the West of England (UWE) and SETsquared Bristol.

These institutions represent a distinctive group of bioscience research staff and students, with established international, national and regional networks, and widely recognised research excellence. As research leaders, we have a strong track record in advancing knowledge through high-quality research and teaching, in partnership with industry and the government.

The programme particularly aims to provide students with outstanding interdisciplinary research training within the following themes:
- Advancing the frontiers of bioscience discovery
- Bioscience for sustainable agriculture and food
- Bioscience for an integrated understanding of health

Importantly this research training is also underpinned by transformative technologies, allowing you to expand the boundaries of your research through innovative tools, technologies and approaches.

For more information about the programme structure, please visit https://www.swbio.ac.uk/programme/

Funding for 2020/21

These studentships are available to UK and EU nationals who have established UK residency (EU nationals must have ordinarily lived in the UK throughout the three years preceding the start of the studentship).

The four core universities (Bath, Bristol, Cardiff and Exeter) have a very limited number of fully-funded four year studentships for EU students who do not meet the residency requirements (1-2 studentships per university)*. Please contact the relevant university for more information.

*These are not available for CASE DTP studentships or Standard DTP studentships with a collaborative partner

Project Description

The actin cytoskeleton plays a vital role in animals, plants and fungi. It forms a branched network within cells, which continually changes shape depending on the current requirements. For example, when a plant is attacked by a pathogen, the plant cells remodel their actin cytoskeleton to deliver immune proteins to the site of attack.   

The rules governing how the actin network is formed are still not well-understood. They require a careful balance of filament growth, bundling, shrinking and branching. A particularly fascinating and unexplored question is how conserved these rules are across different organisms, where cells can take radically different sizes and shapes.   

For example, animal cells often consist of a single, connected compartment, whereas many plant cells contain a large vacuole that forces the cytoplasm into a thin cylinder near the cell wall (see figure). How do these different geometries affect the shape of the actin network, and how do they influence the rules that govern the network?   

Traditional biology tackles problems such as these with a purely experimental approach. However, much quicker progress can be made if mathematical modelling is intimately combined with experiments. This is the program you will follow during this PhD.   

You will use a multidisciplinary approach that combines mathematical modelling, computer simulations, microscopy and image analysis. This will allow you to learn a wide range of different skills and techniques, ideal for a future career in academia or elsewhere. You are not expected to already know both mathematical modelling and wet-lab techniques; full training will be provided in both areas during the PhD.   

In particular, during this project, you will: 

1. Design a mathematical model of the actin network. This will build on our existing model for plants and will involve including filament extension, depolymerisation, branching and capping. These models will then be simulated on a computer using MATLAB or C++. 

2. Take microscopy time-lapse images of the 3D shape of the actin network in both animal and plant cells. This will require using a number of state-of-the-art microscopes in both Exeter and Bristol Universities. 

3. Develop image analysis software to automatically extract the actin network. This will allow quick, accurate analysis of movies from part 2, which will in turn inform the mathematical modelling in part 1. This interplay between experiment and modelling is a key part of this project and will make for a truly exciting PhD.

Eligibility

To be eligible for a fully-funded studentship, you must meet both the academic and residence criteria in line with UKRI guidelines.  Please see the following webpage for further details https://www.swbio.ac.uk/programme/eligibility/.
 
A fully-funded four year SWBio DTP will cover

•    a stipend at the standard UKRI rate; currently £15,009 per annum for 2019-2020
•    research and training costs
•    tuition fees (at the standard UKRI rate)
•    additional funds to support fieldwork, conferences and a 3-month internship

Entry requirements

Applicants should have obtained, or be about to obtain, a First or Upper Second Class UK Honours degree, or the equivalent qualifications gained outside the UK, in an appropriate area of science or technology.  Applicants with a Lower Second Class degree will be considered if they also have Masters degree or have significant relevant non-academic experience.

In addition, due to the strong mathematical component of the taught course in the first year and the quantitative emphasis in our projects, a minimum of a grade B in A-level Maths or an equivalent qualification or experience is required.

If English is not your first language you will need to have achieved at least 6.5 in IELTS and no less than 6.5 in any section by the start of the project.  Alternative tests may be acceptable, please see  http://www.bristol.ac.uk/study/language-requirements/profile-c/.

Students from EU countries who do not meet the residency requirements may still be eligible for a fees-only award but no stipend.  Applicants who are classed as International for tuition fee purposes are not eligible for funding. 

For more informaton about entry requirements please visit https://swbio.ac.uk/programme/eligibility/
 

Equality, Diversity and Inclusion Statement

We want to support diverse and inclusive work environments.  We therefore welcome applications from individuals regardless of their race, ethnicity, sexual orientation, religion, age, gender, or disability status.  We welcome applications from individuals who have previously studied at any recognised Higher Education Institute and from a range of career paths (please refer to the SWBio DTP academic criteria for eligibility), including individuals who have previously trained in the sciences and are wanting to return to scientific research.
We particularly encourage applications from BAME* and mature (this is classed as 30+ years) individuals as these backgrounds are currently underrepresented within our student cohort.

*Black, Asian and minority ethnic.

How to apply

Please be aware you will be asked to upload the following documents:

  • Curriculem Vitae (CV)
  • Letter of application outlining your academic interests, prior research experience and reasons for wishing to undertake the project.  Please indicate your preferred project choice if applying for multiple SWBio DTP projects.
  • Transcript / degree certificate(s)  This should be an interim transcript if you are still studying.
  • Two academic referees - see information below about references.
  • English language certificates (where applicable)

The closing date for applications is midnight on Monday, 2 December 2019. Interviews will be held at the University of Exeter in the weeks commencing 27 January 2020 and 3 February 2020.

Reference information
You will be asked to name 2 referees as part of the application process, however we will not expect receipt of references until after the shortlisting stage. Your referees should not be from the prospective supervisory team.

If you are shortlisted for interview, please ensure that your two academic referees email their references to the pgr-recruitment@exeter.ac.uk, 7 days prior to the interview dates.  Please note that we will not be contacting referees to request references, you must arrange for them to be submitted to us by the deadline.

References should be submitted by your referees to us directly in the form of a letter. Referees must email their references to us from their institutional email accounts. We cannot accept references from personal/private email accounts, unless it is a scanned document on institutional headed paper and signed by the referee.


If you have any general enquiries about the application process please email pgrenquiries@exeter.ac.uk.

Project-specific queries should be directed to the primary supervisor.

Selection process:

Please note, the studentship selection process will take place in two stages:

1.     The project supervisors will consider your application and may invite you to visit for an informal interview. You can apply for more than one SWBio DTP project, although supervisors may take into account your interest and commitment to their particular project.  If you apply for multiple projects, please indicate your preferred project choice in your letter of application.  Each application for an individual project will be considered separately by the project supervisors.

2.     After closure of applications, each supervisory team will then nominate their preferred applicant.  A shortlist will be selected from these nominations and shortlisted applicants will be invited for interview on a selection day at the University of Bristol.  Please note that nomination by a project supervisor therefore does not guarantee the award of a studentship.

Data Protection
During the application process, the University may need to make certain disclosures of your personal data to third parties to be able to administer your application, carry out interviews and select candidates.  These are not limited to, but may include disclosures to:

  •     the selection panel and/or management board or equivalent of the relevant programme,   
        which is likely to include staff from one or more other HEIs;
  •    administrative staff at one or more other HEIs participating in the relevant programme.

Such disclosures will always be kept to the minimum amount of personal data required for the specific purpose. Your sensitive personal data (relating to disability and race/ethnicity) will not be disclosed without your explicit consent.

Summary

Application deadline:2nd December 2019
Value:Tuition fees and an annual stipend allowance at Research Council rates, currently £15,009 per year for 2019-20
Duration of award:per year
Contact: PGR Recruitment Office pgrenquiries@exeter.ac.uk