Inferring epidemic contact structure from phylogenetic trees.

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Version: author
Serval ID
serval:BIB_BAAFB38A1551
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Inferring epidemic contact structure from phylogenetic trees.
Journal
Plos Computational Biology
Author(s)
Leventhal G.E., Kouyos R., Stadler T., von Wyl V., Yerly S., Böni J., Cellerai C., Klimkait T., Günthard H.F., Bonhoeffer S.
ISSN
1553-7358 (Electronic)
ISSN-L
1553-734X
Publication state
Published
Issued date
2012
Volume
8
Number
3
Pages
e1002413
Language
english
Notes
Publication types: Journal ArticlePublication Status: ppublish
Abstract
Contact structure is believed to have a large impact on epidemic spreading and consequently using networks to model such contact structure continues to gain interest in epidemiology. However, detailed knowledge of the exact contact structure underlying real epidemics is limited. Here we address the question whether the structure of the contact network leaves a detectable genetic fingerprint in the pathogen population. To this end we compare phylogenies generated by disease outbreaks in simulated populations with different types of contact networks. We find that the shape of these phylogenies strongly depends on contact structure. In particular, measures of tree imbalance allow us to quantify to what extent the contact structure underlying an epidemic deviates from a null model contact network and illustrate this in the case of random mixing. Using a phylogeny from the Swiss HIV epidemic, we show that this epidemic has a significantly more unbalanced tree than would be expected from random mixing.
Pubmed
Web of science
Open Access
Yes
Create date
25/03/2012 23:04
Last modification date
20/08/2019 15:28
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