Abstract
What takes decades, centuries or millennia to happen with a natural ecosystem, it takes only days, weeks or months with a replicating viral quasispecies in a host, especially when under treatment. Some methods to quantify the evolution of a quasispecies are introduced and discussed, along with simple simulated examples to help in the interpretation and understanding of the results. The proposed methods treat the molecules in a quasispecies as individuals of competing species in an ecosystem, where the haplotypes are the competing species, and the ecosystem is the quasispecies in a host, and the evolution of the system is quantified by monitoring changes in haplotype frequencies. The correlation between the proposed indices is also discussed, and the R code used to generate the simulations, the data and the plots is provided. The virtues of the proposed indices are finally shown on a clinical case.
Keywords
Mutagenesis; Quasispecies evolution; Viral treatment
Bibliographic citation
Gregori J, Ibañez-Lligoña M, Quer J. Quantifying In-Host Quasispecies Evolution. Int J Mol Sci. 2023 Jan 9;24(2):1301.
Audience
Professionals
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https://hdl.handle.net/11351/9083This item appears in following collections
- VHIR - Articles científics [1215]
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