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Automated prediction of health and welfare in captive fish using behaviour from video

   School of Biological Sciences

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  Prof Christos Ioannou, Prof C Garcia de Leaniz, Prof Andrew Dowsey  No more applications being accepted  Competition Funded PhD Project (Students Worldwide)

About the Project

This project aims to develop a new approach to assessing and predicting poor health and welfare n captive fish, with potential application in aquaculture, laboratories and aquariums to help inform management decisions. Although video can allow animals to be monitored continually and at low cost, extracting relevant information is labour intensive and hence costly, prone to human error and biases, and isinsensitive to subtle changes that could provide early‐warning indicators of future poor health and welfare. This project will instead apply the power of computing to extract behaviour from video (using computer vision) and advanced statistical approaches (using machine and deep learning) to predict the health and welfare status of fish in captive conditions. By doing so, the long term aim is to develop software readily available for research and industry that analyses video footage from holding tanks of fish in close to real‐time, particularly to act as an early‐warning monitoring system that can allow staff to intervene before problems occur. Standard protocols for measuring health and welfare of fish and behavioural data extracted from video will be used to train machine/deep learning methods to generate models that can accurately predict the health of fish from only the video.

The project will suit a student with a background in biology as the project requires handling animals and analysing biological samples under laboratory conditions. The student will also have a strong interest in data analysis and programming, including the willingness to learn new computational methods. Hence the student will gain extensive experience in assessing animal health and welfare, automated methods for extracting data from video, and analysis of ‘big data’ using well‐established machine/deep learning methods.     

The farming of fish, i.e. aquaculture, has the potential to meet the growing demand for animal protein across the globe, and can be more sustainable than traditional livestock farming on land. Additionally, fish are well‐established as model laboratory organisms in medical and biological research. However, monitoring captive fish to maintain their health and welfare is much more difficult than monitoring their terrestrial counterparts, and detection of adverse health and welfare in fish often occurs when it is too late, with individuals or whole groups often needing to be culled. This project seeks to provide a low cost and low maintenance early‐warning system for captive fish.

Our aim as the SWBio DTP is to support students from a range of backgrounds and circumstances.  Where needed, we will work with you to take into consideration reasonable project adaptations (for example to support caring responsibilities, disabilities, other significant personal circumstances) as well as flexible working and part‐time study requests, to enable greater access to a PhD.  All our supervisors support us with this aim, so please feel comfortable in discussing further with the listed PhD project supervisor to see what is feasible.

Information on “How to Apply” is available here: When applying to the University of Bristol, please use the following link: Start your application | Study at Bristol | University of Bristol. To choose the correct programme, please start to type 'South West' in the search box and the SWBio programme will appear. When making your application, please indicate the supervisor name and the project title on the form. Ensure you provide all supporting documents as per the programme admissions statement.

Funding Notes

Application deadline: Midnight, Monday 5 December 2022
This is a 4 year PhD studentship fully funded by the BBSRC, SWBio Doctoral Training Partnership. Full details on the BBSRC SWBio DTP programme can be found at: This link includes information on projects available, eligibility requirements and the selection process.

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