High genetic diversity of HIV-1 strains in Chad, West Central Africa
High genetic diversity of HIV-1 strains in Chad, West Central Africa
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DOI：
10.1097/00126334-200306010-00020
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发表时间：
2003-06-01
影响因子：
3.6
通讯作者：
Peeters, M
中科院分区：
文献类型：
--
作者：
Vidal, N;Koyalta, D;Peeters, M
乍得艾滋病毒1型毒株的遗传多样性是用来自乍得首都恩贾梅纳综合医院患者的107份样本记录的。通过序列分析和系统发育树分析，在V3-V5 env和p24 gag区域确定了基因亚型。在107个菌株中，78个在env和gag之间具有相同的亚型/CRF名称。发现4种亚型和3种CRF共循环：A亚型，20.5%; D亚型，18.7%; CRF02_AG，13.1%; CRF11_cpx，13.1%; G亚型，3.7%; CRF01_AE，2.8%;和F1亚型，0.9%。其余29株（27%）在env和gag之间具有不一致的亚型或CRF名称;在这29株中的15株中，CRF参与重组事件，10株为gag中的G亚型和env中的A亚型，在G亚型和A亚型内形成单独的亚群。亚型D毒株占乍得流行的HIV-1毒株的近20%，并在gag和env中形成单独的亚群。两个这样的菌株（99 TCD-MNO 11和99 TCD-MN 012）的近全长基因组测序显示，它们代表非重组亚型D变体。与邻国相比，乍得HIV-1病毒株的基因亚型分布是独特的，原因有几个：CRF 02的流行率较低，CRF 11和D亚型的流行率较高，以及CRF 06的缺失。这些数据清楚地表明，亚型分布是非常异质性在非洲，可能是不同的创始人效应的结果。
The genetic diversity of HIV-1 strains in Chad was documented with a total of 107 samples from patients attending the general hospital in N'Djamena, the capital city of Chad. The genetic subtypes were identified in the V3-V5 env and p24 gag regions by sequence and phylogenetic tree analyses. Of the 107 strains, 78 had the same subtype/CRF designation between env and gag. Four subtypes and three CRFs were found to cocirculate: subtype A, 20.5 %; subtype D, 18.7 %; CRF02_AG, 13.1 %; CRF11_cpx, 13.1 %; subtype G, 3.7%; CRF01_AE, 2.8%; and subtype F1, 0.9%. The remaining 29 strains (27%) had discordant subtypes or CRF designations between env and gag; in 15 of these 29 strains, a CRF was involved in the recombination event, and 10 were subtype G in gag and subtype A in env, forming a separate subcluster within subtypes G and A. Subtype D strains represent almost 20% of the HIV-1 strains circulating in Chad and form a separate subcluster in gag and env. Nearly full-length genome sequencing for two such strains (99TCD-MNO11 and 99TCD-MN012) revealed that they represent nonrecombinant subtype D variants. Compared with neighboring countries, the genetic subtype distribution of HIV-1 strains in Chad is unique for several reasons: lower prevalence of CRF02, high prevalence of CRF11 and subtype D, and absence of CRF06. These data clearly show that subtype distribution is very heterogeneous in Africa, probably the result of different founder effects.