Complete genome sequencing and phylogenetic analysis of HCV isolates from China reveals a new subtype, designated 6u
Complete genome sequencing and phylogenetic analysis of HCV isolates from China reveals a new subtype, designated 6u
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DOI：
10.1002/jmv.21287
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发表时间：
2008-10-01
影响因子：
12.7
通讯作者：
Lu, Ling
中科院分区：
文献类型：
--
作者：
Xia, Xueshan;Zhao, Wenhua;Lu, Ling
对三种新型丙型肝炎病毒 (HCV) 分离株（此处命名为 DH012、DH014 和 DH028）的全长基因组序列进行了表征。完整基因组均从居住在与缅甸接壤的中国云南省德宏州的同时感染 HIV-1 的注射吸毒者 (IDU) 中分离出来。三个基因组的长度为 9,443-9,470 nt，每个基因组都包含一个 9,069 nt 长的开放阅读框 (ORF)。配对比较表明，三个分离株之间的核苷酸相似性为 97.9-98.6%，三个分离株与 20 个参考毒株（代表 HCV 亚型 6a-6q 和 6t 加上两个未分配的基因型 6 分离株 km41 和 gz52557）之间的相似性为 72.4-75.0%。系统发育分析表明，这三个分离株在基因型 6 进化枝中形成了一个紧密且支持良好的单系簇。使用相似图和引导扫描分析没有发现病毒重组的证据。根据当前的 HCV 分类标准，我们将这三种分离株归为新的亚型 6u。尽管最近报道了另一种“6u”分离株 D83，但它与我们在此描述的三个分离株有亚典型的不同。由于其命名不符合更新的 HCV 命名法提案中描述的标准，因此该“6u”分离株应重新分类。
Full length genome sequences were characterized for three novel hepatitis C virus (HCV) isolates (here named DH012, DH014, and DH028). The complete genomes were all isolated from injecting drug users (IDUs) who were co-infected with HIV-1 and lived in Dehong prefecture, Yunnan Province, China, which neighbors Myanmar. The three genomes are 9,443-9,470 nt in length and each contains a single open reading frame (ORF) of 9,069 nt long. Pairwise comparisons indicated nucleotide similarities of 97.9-98.6% among the three isolates, and similarities of 72.4-75.0% between the three isolates and 20 reference strains (representing HCV subtypes 6a-6q and 6t plus two unassigned genotype 6 isolates km41 and gz52557). Phylogenetic analyses demostrated that the three isolates formed a tight and well-supported monophyletic cluster in the genotype 6 clade. No evidence of viral recombination was found using similarity plots and bootscanning analyses. Based on the current HCV classification criteria, we have assigned the three isolates to a new subtype, 6u. Although another "6u" isolate D83 has been reported very recently, it is subtypically distinct from the three isolates we described here. Because its designation does not meet the criteria described in the updated HCV nomenclature proposal, this "6u" isolate should be reclassified.