Nature Communications (Nov 2020)
Epidemiological hypothesis testing using a phylogeographic and phylodynamic framework
- Simon Dellicour,
- Sebastian Lequime,
- Bram Vrancken,
- Mandev S. Gill,
- Paul Bastide,
- Karthik Gangavarapu,
- Nathaniel L. Matteson,
- Yi Tan,
- Louis du Plessis,
- Alexander A. Fisher,
- Martha I. Nelson,
- Marius Gilbert,
- Marc A. Suchard,
- Kristian G. Andersen,
- Nathan D. Grubaugh,
- Oliver G. Pybus,
- Philippe Lemey
Affiliations
- Simon Dellicour
- Spatial Epidemiology Lab (SpELL), Université Libre de Bruxelles
- Sebastian Lequime
- Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven
- Bram Vrancken
- Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven
- Mandev S. Gill
- Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven
- Paul Bastide
- Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven
- Karthik Gangavarapu
- Department of Immunology and Microbiology, The Scripps Research Institute
- Nathaniel L. Matteson
- Department of Immunology and Microbiology, The Scripps Research Institute
- Yi Tan
- Department of Medicine, Vanderbilt University Medical Center
- Louis du Plessis
- Department of Zoology, University of Oxford
- Alexander A. Fisher
- Department of Biomathematics, David Geffen School of Medicine, University of California
- Martha I. Nelson
- Fogarty International Center, National Institutes of Health
- Marius Gilbert
- Spatial Epidemiology Lab (SpELL), Université Libre de Bruxelles
- Marc A. Suchard
- Department of Biomathematics, David Geffen School of Medicine, University of California
- Kristian G. Andersen
- Department of Immunology and Microbiology, The Scripps Research Institute
- Nathan D. Grubaugh
- Department of Epidemiology of Microbial Diseases, Yale School of Public Health
- Oliver G. Pybus
- Department of Zoology, University of Oxford
- Philippe Lemey
- Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven
- DOI
- https://doi.org/10.1038/s41467-020-19122-z
- Journal volume & issue
-
Vol. 11,
no. 1
pp. 1 – 11
Abstract
Classical epidemiological approaches have been limited in their ability to formally test hypotheses. Here, Dellicour et al. illustrate how phylodynamic and phylogeographic analyses can be leveraged for hypothesis testing in molecular epidemiology using West Nile virus in North America as an example.
