Dr David Cleary
PhD
Career Track Post-Doctoral Fellow
Profile page(s)
Dr Cleary is a Career-track Post-Doctoral Fellow in the Faculty of Medicine and the Southampton NIHR Biomedical Research Centre. His research focuses on the application of computational biology approaches to understand the epidemiology and pathogenicity of infectious disease, primarily of those pathogens that can be carried in the human respiratory tract such as Streptococcus pneumoniae and Non-typeable Haemophilus influenzae. In addition, his research involves characterising respiratory tract microbiomes to determine the community-host interactions that underpin colonisation and progression to disease.
Landmark publications:
Cleary, D., Morris, D., Anderson, R., Jones, J., Alattraqchi , A. G., Rahman , N. I., Ismail, S., Razali, M., Amin, R. M., Amin, R. M., Aziz, A. A., Esa, N. K., Amiruddin, S., Chew, C. H., Amat Simin, M. H., Abdullah, R., Yeo, C. C., & Clarke, S. (2021). The upper respiratory tract microbiome of indigenous Orang Asli in north-eastern Peninsular Malaysia. NPJ Biofilms and Microbiomes, 7(1), [1]. https://doi.org/10.1038/s41522-020-00173-5
Cleary, D., Devine, V., Morris, D., Osman, K., Gladstone, R., Bentley, S. D., Faust, S., & Clarke, S. (2018). Pneumococcal vaccine impacts on the population genomics of non-typeable Haemophilus influenzae. Microbial Genomics. https://doi.org/10.1099/mgen.0.000209
Osman, K., Jefferies, J. M. C., Woelk, C. H., Devos, N., Pascal, T. G., Mortier, M-C., Devaster, J-M., Wilkinson, T. M. A., Cleary, D.*, Clarke, S.*, & AERIS Study Group (2018). Patients with Chronic Obstructive Pulmonary Disease harbour a variation of Haemophilus species. Scientific Reports, 8(1), 1-11. [14734]. https://doi.org/10.1038/s41598-018-32973-3
*Joint Senior Authors
Pandey, A., Cleary, D. W., Laver, J. R., Gorringe, A., Deasy, A. M., Dale, A. P., Morris, P. D., Didelot, X., Maiden, M. C. J., & Read, R. C. (2018). Microevolution of Neisseria lactamica during nasopharyngeal colonisation induced by controlled human infection. Nature Communications, 9(1), [4753]. https://doi.org/10.1038/s41467-018-07235-5
Devine, V. T.*, Cleary, D. W.*, Jefferies, J. M. C., Anderson, R., Morris, D. E., Tuck, A. C., Gladstone, R. A., O'Doherty, G., Kuruparan, P., Bentley, S. D., Faust, S. N., & Clarke, S. C. (2017). The rise and fall of pneumococcal serotypes carried in the PCV era. Vaccine, 35(9), 1293-1298. https://doi.org/10.1016/j.vaccine.2017.01.035
*Joint 1st Authors
Major grants:
Impacts of Bordetella pertussis colonisation on the upper respiratory tract microbiome (HIC-Vac)
Transcriptomics of host-microbiota interactions using direct dual RNA-Seq (Wessex Medical Research)
From observations to mechanisms: linking analyses of upper respiratory tract microbiomes with mechanistic microbial ecology (Rosetrees Trust)