Global phylogeny of Treponema pallidum lineages reveals recent expansion and spread of contemporary syphilis.
Global phylogeny of Treponema pallidum lineages reveals recent expansion and spread of contemporary syphilis.
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DOI：
10.1038/s41564-021-01000-z
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发表时间：
2021-12
影响因子：
28.3
通讯作者：
Thomson NR
中科院分区：
文献类型：
--
作者：
Beale MA;Marks M;Cole MJ;Lee MK;Pitt R;Ruis C;Balla E;Crucitti T;Ewens M;Fernández-Naval C;Grankvist A;Guiver M;Kenyon CR;Khairullin R;Kularatne R;Arando M;Molini BJ;Obukhov A;Page EE;Petrovay F;Rietmeijer C;Rowley D;Shokoples S;Smit E;Sweeney EL;Taiaroa G;Vera JH;Wennerås C;Whiley DM;Williamson DA;Hughes G;Naidu P;Unemo M;Krajden M;Lukehart SA;Morshed MG;Fifer H;Thomson NR
梅毒，这是由性传播细菌梅毒螺旋体亚种。据估计，全世界每年有630万例梅毒病例。在过去的十年中，梅毒的发病率在一些高收入国家增加了150%以上，但人们对该流行病的演变和流行病学知之甚少。为了研究T.在pallidum中，我们收集了来自23个国家的626个临床和100个实验室样本的726个基因组的地理和时间多样性。我们应用系统发育分析和聚类，发现全球梅毒人群只包括两个分支很深的谱系，Nichols和SS14。这两种血统目前在23个抽样国家中的12个国家流行。我们细分了T. p. pallidum分为17个不同的亚系，以提供进一步的免疫动力学分辨率。重要的是，两个尼科尔斯亚系与SS14同时在9个国家进行了克隆扩张。此外，成对基因组分析揭示了在过去20年内从14个不同国家收集的分离株的例子，这些分离株具有遗传上相同的核心基因组，这可能表明通过国际传播进行的频繁交流。令人惊讶的是，1983年之前收集的大多数样本在遗传学上与最近分离的亚系不同。使用贝叶斯时间分析，我们发现在20世纪90年代后期发生了人口瓶颈，随后在21世纪初，由占主导地位的T驱动的人口迅速扩张。苍白球的亚系。这种扩张可能与不断变化的流行病学，免疫逃避或抗菌选择压力下的适应性有关，因为我们所描述的许多当代梅毒谱系对大环内酯类药物具有耐药性。全球梅毒流行率一直在上升。对全球收集的726份梅毒螺旋体样本进行测序和分析，揭示了与二十世纪末以来发生的快速扩张有关的全球循环谱系。
Syphilis, which is caused by the sexually transmitted bacterium Treponema pallidum subsp. pallidum, has an estimated 6.3 million cases worldwide per annum. In the past ten years, the incidence of syphilis has increased by more than 150% in some high-income countries, but the evolution and epidemiology of the epidemic are poorly understood. To characterize the global population structure of T. pallidum, we assembled a geographically and temporally diverse collection of 726 genomes from 626 clinical and 100 laboratory samples collected in 23 countries. We applied phylogenetic analyses and clustering, and found that the global syphilis population comprises just two deeply branching lineages, Nichols and SS14. Both lineages are currently circulating in 12 of the 23 countries sampled. We subdivided T. p. pallidum into 17 distinct sublineages to provide further phylodynamic resolution. Importantly, two Nichols sublineages have expanded clonally across 9 countries contemporaneously with SS14. Moreover, pairwise genome analyses revealed examples of isolates collected within the last 20 years from 14 different countries that had genetically identical core genomes, which might indicate frequent exchange through international transmission. It is striking that most samples collected before 1983 are phylogenetically distinct from more recently isolated sublineages. Using Bayesian temporal analysis, we detected a population bottleneck occurring during the late 1990s, followed by rapid population expansion in the 2000s that was driven by the dominant T. pallidum sublineages circulating today. This expansion may be linked to changing epidemiology, immune evasion or fitness under antimicrobial selection pressure, since many of the contemporary syphilis lineages we have characterized are resistant to macrolides. Global syphilis prevalence has been increasing. Sequencing and analysis of a global collection of 726 Treponema pallidum samples reveal globally circulating lineages linked to a rapid expansion occurring since the end of the twentieth century.
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影响因子：
3.1
作者：
Chesson, HW;Dee, TS;Aral, SO
通讯作者：
Aral, SO
影响因子：
1.2
作者：
Cingolani, Pablo;Platts, Adrian;Ruden, Douglas M.
通讯作者：
Ruden, Douglas M.
DOI：
10.1002/cjs.5550360302
发表时间：
2008-09-01
影响因子：
0.6
作者：
Ferreira, Marco A. R.;Suchard, Marc A.
通讯作者：
Suchard, Marc A.
影响因子：
38.2
作者：
Beale, Mathew A.;Noguera-Julian, Marc;Mitja, Oriol
通讯作者：
Mitja, Oriol
影响因子：
10.7
作者：
Hoang DT;Chernomor O;von Haeseler A;Minh BQ;Vinh LS
通讯作者：
Vinh LS