Korber B, Muldoon M, Theiler J, Gao F, Gupta R, Lapedes A, Hahn B H, Wolinsky S, Bhattacharya T
Los Alamos National Laboratory, Los Alamos, NM 87545, USA.
Science. 2000 Jun 9;288(5472):1789-96. doi: 10.1126/science.288.5472.1789.
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.
对HIV-1序列进行了分析，以估计HIV-1主要群体（即引发艾滋病大流行的毒株）祖先序列出现的时间。我们使用并行超级计算机，并假设进化速率恒定，将最大似然系统发育方法应用于前所未有的大量数据进行此计算。我们通过正确估计两个有历史记录的时间点，验证了我们的方法。使用全面的全长包膜序列比对，我们估计HIV-1主要群体的最后一个共同祖先的出现时间为1931年（1915 - 1941年）。对gag基因比对、包括额外序列的包膜子区域的分析，以及一种放宽严格分子钟假设的方法也支持了这些结果。
