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Evolution of Influenza Viruses - prediction of possible future antigenic variants

  • Full or part time
  • Application Deadline
    Thursday, January 02, 2020
  • Funded PhD Project (Students Worldwide)
    Funded PhD Project (Students Worldwide)

Project Description

Evolution of Influenza Viruses
Centre for Pathogen Evolution
Department of Zoology
University of Cambridge

Project summary:

Our research focus is to design and develop analytical, computational, and mathematical methods to understand the fundamental processes that govern the evolution of influenza viruses. The aim is to translate this understanding into the prediction of possible future antigenic variants to guide phase II clinical trials of next generation influenza vaccines. Our research is highly interdisciplinary and involves substantial global collaboration with experimental virologists, immunologists and clinicians to quantify the selection pressures on influenza viruses in order to better understand their evolutionary dynamics, and to inform control strategies.

What the student will be doing:

The work in our group is theoretical and computational, in collaboration with experimental partners. Though this project is primarily computational, our group collaborates closely with experimental partners worldwide, eg, Erasmus MC and the University of Wisconsin, and thus it is possible to experimentally validate computational predictions emerging from this project.

Supervisor: Derek Smith

Derek Smith is Professor of Infectious Disease Informatics in the Zoology Department at Cambridge University. He is an advisor to the WHO influenza vaccine strain selection committee, and is also involved in vaccine strain selection for other human and non-human pathogens for the United Nations Food and Agriculture Organization and the World Animal Health Organisation.

Derek’s research focuses on how pathogens evolve, to what extent this evolution is predictable, and determining public and animal health measures against such ever-changing pathogens. His group has developed vital computational tools for analysis and interpretation of influenza antigenic variation and antibody responses to influenza. He has a long-standing interest in the effects of prior immunity and repeated vaccination. The combination of extensive knowledge of influenza epidemiology and immunology with novel modelling and computational analyses has enabled him to answer fundamental questions about virus evolution and antibody mediated protection.


Applications for this project are welcome from suitably qualified candidates worldwide. The successful candidate should have an Honours Degree at 2.1 or above (or equivalent). Candidates whose first language is not English should have an IELTS score of 7.0 or equivalent.


Please include a 1-page maximum explanation of why you are applying to our project with your CV when you upload it.

Funding Notes

This project comes with a stipend which is highly competitive. This funding is not restricted by nationality. Suitably qualified students worldwide are eligible for this funding.


Mosterín Höpping A, et al (2016) The confounded effects of age and exposure history in response to influenza vaccination. Vaccine, 34(4):540-546. doi:10.1016/j.vaccine.2015.11.058.

Li C, et al (2016) Selection of antigenically advanced variants of seasonal influenza viruses. Nature Microbiology, 1(6):16058. doi:10.1038/nmicrobiol.2016.58.

Fonville JM, et al (2014) Antibody landscapes after influenza virus infection or vaccination. Science, 346(6212):996-1000. doi:10.1126/science.1256427.

Watanabe T, et al (2014) Circulating Avian Influenza Viruses Closely Related to the 1918 Virus Have Pandemic Potential. Cell Host & Microbe, 15(6):692-705. doi:10.1016/j.chom.2014.05.006.

Koel BF, et al (2013) Substitutions near the receptor binding site determine major antigenic change during influenza virus evolution. Science. Nov 22;342(6161):976-9. doi: 10.1126/science.1244730.

Russell CA, et al (2012) The Potential for Respiratory Droplet-Transmissible A/H5N1 Influenza Virus to Evolve in a Mammalian Host. Science 336 (6088):1541-1547.

Smith DJ, et al (2004) Mapping the Antigenic and Genetic Evolution of Influenza Virus. Science 305: 371-376.

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