Timing the ancestor of the HIV-1 pandemic strains
Timing the ancestor of the HIV-1 pandemic strains
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DOI：
10.1126/science.288.5472.1789
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发表时间：
2000-06-09
期刊：
影响因子：
56.9
通讯作者：
Bhattacharya, T
中科院分区：
文献类型：
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作者：
Korber, B;Muldoon, M;Bhattacharya, T
分析HIV-1序列以估计HIV-1主要组的祖先序列的时间，HIV-1是导致艾滋病流行的毒株。使用并行超级计算机，并假设一个恒定的进化速率，我们应用最大似然系统发育方法，以前所未有的数据量进行计算。我们通过正确估计两个历史记录点的时间来验证我们的方法。使用全面的全长包膜序列比对，我们估计HIV-1主要群体的最后共同祖先的日期为1931年（1915-41）。分析的gag基因比对，亚区的信封，包括额外的序列，和一种方法，放松了严格的分子钟的假设也支持这些结果。
HIV-1 sequences were analyzed to estimate the timing of the ancestral sequence of the main group of HIV-1, the strains responsible for the AIDS pandemic. Using parallel supercomputers and assuming a constant rate of evolution, we applied maximum-likelihood phylogenetic methods to unprecedented amounts of data for this calculation. We validated our approach by correctly estimating the timing of two historically documented points. Using a comprehensive full-length envelope sequence alignment, we estimated the date of the Last common ancestor of the main group of HIV-1 to be 1931 (1915-41). Analysis of a gag gene alignment, subregions of envelope including additional sequences, and a method that relaxed the assumption of a strict molecular clock also supported these results.