A Direct Comparison of Two Densely Sampled HIV Epidemics: The UK and Switzerland

Ragonnet-Cronin, M. L. and Shilaih, M. and Gunthard, H. F. and Hodcroft, E. B. and Boni, J. and Fearnhill, E. and Dunn, D. and Yerly, S. and Klimkait, T. and Aubert, V. and Yang, W. L. and Brown, A. E. and Lycett, S. J. and Kouyos, R. and Brown, A. J.. (2016) A Direct Comparison of Two Densely Sampled HIV Epidemics: The UK and Switzerland. Sci Rep, 6. p. 32251.

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Official URL: https://edoc.unibas.ch/62181/

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Phylogenetic clustering approaches can elucidate HIV transmission dynamics. Comparisons across countries are essential for evaluating public health policies. Here, we used a standardised approach to compare the UK HIV Drug Resistance Database and the Swiss HIV Cohort Study while maintaining data-protection requirements. Clusters were identified in subtype A1, B and C pol phylogenies. We generated degree distributions for each risk group and compared distributions between countries using Kolmogorov-Smirnov (KS) tests, Degree Distribution Quantification and Comparison (DDQC) and bootstrapping. We used logistic regression to predict cluster membership based on country, sampling date, risk group, ethnicity and sex. We analysed <8,000 Swiss and <30,000 UK subtype B sequences. At 4.5% genetic distance, the UK was more clustered and MSM and heterosexual degree distributions differed significantly by the KS test. The KS test is sensitive to variation in network scale, and jackknifing the UK MSM dataset to the size of the Swiss dataset removed the difference. Only heterosexuals varied based on the DDQC, due to UK male heterosexuals who clustered exclusively with MSM. Their removal eliminated this difference. In conclusion, the UK and Swiss HIV epidemics have similar underlying dynamics and observed differences in clustering are mainly due to different population sizes.
Faculties and Departments:03 Faculty of Medicine > Departement Biomedizin > Division of Medical Microbiology > Molecular Virology (Klimkait)
UniBasel Contributors:Klimkait, Thomas
Item Type:Article, refereed
Article Subtype:Research Article
ISSN:2045-2322 (Electronic) 2045-2322 (Linking)
Note:Publication type according to Uni Basel Research Database: Journal article
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Last Modified:26 May 2020 09:26
Deposited On:26 May 2020 09:26

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