Identification of Two New HIV-1 Circulating Recombinant Forms ( CRF87_ cpx and CRF88_ BC) from Reported Unique Recombinant Forms in Asia
Identification of Two New HIV-1 Circulating Recombinant Forms ( CRF87_ cpx and CRF88_ BC) from Reported Unique Recombinant Forms in Asia
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DOI：
10.1089/aid.2016.0252
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发表时间：
2017-04-01
影响因子：
1.5
通讯作者：
Zhang, Chiyu
中科院分区：
文献类型：
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作者：
Hu, Yihong;Wan, Zhenzhou;Zhang, Chiyu
不断产生的 HIV-1 亚型间重组导致亚洲出现新的循环重组形式 (CRF) 和独特的重组形式 (URF)。在这项研究中，我们评估了之前报道的 URF 是否实际上是 CRF。来自亚洲的所有可用的完整或接近全长的 HIV-1 URF 序列均从 HIV 洛斯阿拉莫斯国家实验室序列数据库中检索，并使用 MEGA 6.0、Cluster Picker 1.2.1 和 SimPlot3.5.1 进行系统发育、传播聚类和引导扫描分析。根据新CRF的标准，从这些可用的URF中识别出两个新的HIV-1 CRF（CRF87_cpx和CRF88_BC）。 CRF87_cpx包括HIV-1亚型B、C和CRF01_AE，CRF88_BC包括B和C亚型。HIV Blast和bootscan分析显示，除了这三种代表性毒株外，还有另外两种CRF87_cpx毒株。此外，我们定义了七个显性URF（dURF01-dURF07），每个都包含两个共享相同重组图谱的菌株，可以用作序列参考，以方便将来发现新的潜在CRF。这些结果将有利于亚洲HIV-1的分子流行病学调查。
The on-going generation of HIV-1 intersubtype recombination has led to newcirculating recombinant forms (CRFs) and unique recombinant forms (URFs) in Asia. In this study, we evaluated whether previously reported URFs were actually CRFs. All available complete or near full-length HIV-1 URF sequences from Asia were retrieved from the HIV Los Alamos National Laboratory Sequence database, and phylogenetic, transmission cluster, and bootscan analyses were performed using MEGA 6.0, Cluster Picker 1.2.1, and SimPlot3.5.1. According to the criterion of new CRFs, two new HIV-1 CRFs (CRF87_cpx and CRF88_BC) were identified from these available URFs. CRF87_cpx comprised HIV-1 subtypes B, C, and CRF01_AE, and CRF88_BC comprised subtypes B and C. HIV Blast and bootscan analysis revealed that besides the three representative strains, there were two additionalCRF87_cpx strains. Furthermore, we defined seven dominant URFs (dURF01-dURF07), each of which contained two strains sharing same recombination map and can be used as sequence references to facilitate the finding of new potential CRFs in future. These results will benefit the molecular epidemiological investigation of HIV-1 in Asia.