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首页> 外文期刊>AIDS Research and Human Retroviruses >Phylogenetic Analysis of Ethiopian HIV-1 Subtype C Near Full-Length Genomes Reveals High Intrasubtype Diversity and a Strong Geographical Cluster
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Phylogenetic Analysis of Ethiopian HIV-1 Subtype C Near Full-Length Genomes Reveals High Intrasubtype Diversity and a Strong Geographical Cluster

机译：全长基因组附近的埃塞俄比亚HIV-1 C亚型的系统发育分析揭示了高度的亚型内多样性和强大的地理簇

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摘要

In this study, we characterize HIV-1 subtype C (HIV-1C) strains at the near full-length genome (NFLG) level and perform genotypic drug resistance testing (GRT) and genotypic tropism testing (GTT) from Ethiopia (HIV-1C(ET)). Plasma samples (n=150) were obtained from therapy-naive individuals residing in Addis Ababa, Ethiopia in 2008. HIV-NFLG was performed in a subset of patients (n=30). GRT (pol) and GTT (V3 env) were performed using in-house methods. GTT was analyzed by PhenoSeq-C. The phylogenetic analysis of the NLFG identified two separate clusters of HIV-1C(ET), although all strains formed one large overarching cluster together. At NFLG, greater diversity was found among HIV-1C(ET) strains compared to HIV-1C strains from other geographical locations. The geographic clustering was weak in the small subgenomic (pol and env) regions. The primary drug-resistant mutations were identified at a low level (<5%). GTT identified that 12% (12/102) of the patients were predicted to be harboring X4-tropic or both R5/X4-tropic viruses.
机译：在这项研究中，我们表征了近全长基因组（NFLG）水平的HIV-1亚型C（HIV-1C）菌株，并执行了埃塞俄比亚（HIV-1C）的基因型耐药性测试（GRT）和基因型向性测试（GTT） （ET））。从2008年居住在埃塞俄比亚亚的斯亚贝巴的未接受过治疗的个体中获取血浆样本（n = 150）。在部分患者中进行了HIV-NFLG检测（n = 30）。 GRT（pol）和GTT（V3 env）使用内部方法进行。通过PhenoSeq-C分析GTT。 NLFG的系统发育分析确定了两个单独的HIV-1C（ET）簇，尽管所有菌株共同形成了一个大的总体簇。在NFLG中，与其他地理位置的HIV-1C株相比，HIV-1C（ET）株之间发现了更大的多样性。在较小的亚基因组（pol和env）区域，地理集群很弱。初级耐药性突变被鉴定为低水平（<5％）。 GTT确定，预计有12％（12/102）的患者携带X4嗜性或R5 / X4嗜性病毒。

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