Please use this identifier to cite or link to this item: https://doi.org/10.1093/molbev/msr266
Title: Inconsistencies in estimating the age of HIV-1 subtypes due to heterotachy
Authors: Wertheim, J.O.
Fourment, M. 
Kosakovsky Pond, S.L.
Keywords: HIV-1
molecular clock
rate variation
Issue Date: Feb-2012
Citation: Wertheim, J.O., Fourment, M., Kosakovsky Pond, S.L. (2012-02). Inconsistencies in estimating the age of HIV-1 subtypes due to heterotachy. Molecular Biology and Evolution 29 (2) : 451-456. ScholarBank@NUS Repository. https://doi.org/10.1093/molbev/msr266
Abstract: Rate heterogeneity among lineages is a common feature of molecular evolution, and it has long impeded our ability to accurately estimate the age of evolutionary divergence events. The development of relaxed molecular clocks, which model variable substitution rates among lineages, was intended to rectify this problem. Major subtypes of pandemic HIV-1 group M are thought to exemplify closely related lineages with different substitution rates. Here, we report that inferring the time of most recent common ancestor of all these subtypes in a single phylogeny under a single (relaxed) molecular clock produces significantly different dates for many of the subtypes than does analysis of each subtype on its own. We explore various methods to ameliorate this problem. We conclude that current molecular dating methods are inadequate for dealing with this type of substitution rate variation in HIV-1. Through simulation, we show that heterotachy causes root ages to be overestimated. © The Author 2011. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved.
Source Title: Molecular Biology and Evolution
URI: http://scholarbank.nus.edu.sg/handle/10635/128622
ISSN: 07374038
DOI: 10.1093/molbev/msr266
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