Phylodynamic theory of persistence, extinction and speciation of rapidly adapting pathogens

Yan, Le and Neher, Richard A. and Shraiman, Boris I.. (2019) Phylodynamic theory of persistence, extinction and speciation of rapidly adapting pathogens. eLife, 8. e44205.

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Official URL: https://edoc.unibas.ch/72445/

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Rapidly evolving pathogens like influenza viruses can persist by changing their antigenic properties fast enough to evade the adaptive immunity, yet they rarely split into diverging lineages. By mapping the multi-strain Susceptible-Infected-Recovered model onto the traveling wave model of adapting populations, we demonstrate that persistence of a rapidly evolving, Red-Queen-like state of the pathogen population requires long-ranged cross-immunity and sufficiently large population sizes. This state is unstable and the population goes extinct or 'speciates' into two pathogen strains with antigenic divergence beyond the range of cross-inhibition. However, in a certain range of evolutionary parameters, a single cross-inhibiting population can exist for times long compared to the time to the most recent common ancestor ([Formula: see text]) and gives rise to phylogenetic patterns typical of influenza virus. We demonstrate that the rate of speciation is related to fluctuations of [Formula: see text] and construct a 'phase diagram' identifying different phylodynamic regimes as a function of evolutionary parameters.
Faculties and Departments:05 Faculty of Science > Departement Biozentrum > Computational & Systems Biology > Computational Modeling of Biological Processes (Neher)
UniBasel Contributors:Neher, Richard A
Item Type:Article, refereed
Article Subtype:Research Article
Publisher:eLife Sciences Publications
Note:Publication type according to Uni Basel Research Database: Journal article
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edoc DOI:
Last Modified:11 Nov 2019 14:51
Deposited On:04 Nov 2019 14:20

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