HIV infection and hepatitis C virus genotype 1 a are associated with phylogenetic clustering among people with recently acquired hepatitis C virus infection
HIV infection and hepatitis C virus genotype 1 a are associated with phylogenetic clustering among people with recently acquired hepatitis C virus infection
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DOI：
10.1016/j.meegid.2015.11.028
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发表时间：
2016-01-01
影响因子：
3.2
通讯作者：
Applegate, Tanya L.
中科院分区：
文献类型：
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作者：
Bartlett, Sofia R.;Jacka, Brendan;Applegate, Tanya L.
本研究的目的是确定与最近感染丙型肝炎病毒 (HCV) 感染者的系统发育聚类相关的因素。从三项研究中选出在 HCV 检测时具有可用样本的参与者；澳大利亚急性丙型肝炎试验、监狱和社区丙型肝炎发病率和传播研究。提取HCV RNA并对HCV的核心至E2区域进行测序。使用 90% bootstrap 和 5% 遗传距离阈值，从具有 1000 个 bootstrap 重复的最大似然树中识别簇。在 225 名具有可用 Core-E2 序列的参与者中（ATAHC，n = 113；HITS-p，n = 90；和 HITS-c，n = 22），HCV 基因型患病率为：G1a：38%（n = 86），G1b：5%（n = 12），G2a：1%（n = 2），G2b：5%（n = 11)、G3a：48% (n = 109)、G6a：1% (n = 2) 和 G6l 1% (n = 3)。在系统发育树中包含的参与者中，22% 的参与者处于一对/簇中（G1a-35%，30/85，平均最大遗传距离 = 0.031；G3a-11%，12/106，平均最大遗传距离 = 0.021；其他基因型 - 21%，6/28，平均最大遗传距离 = 0.023）。在 HCV/HIV 共同感染参与者中，50% (18/36) 为一对/集群，相比之下，HCV 单一感染者为 16% (30/183)（P =
The aim of this study was to identify factors associated with phylogenetic clustering among people with recently acquired hepatitis C virus (HCV) infection. Participants with available sample at time of HCV detection were selected from three studies; the Australian Trial in Acute Hepatitis C, the Hepatitis C Incidence and Transmission Study Prison and Community. HCV RNA was extracted and Core to E2 region of HCV sequenced. Clusters were identified from maximum likelihood trees with 1000 bootstrap replicates using 90% bootstrap and 5% genetic distance threshold. Among 225 participants with available Core-E2 sequence (ATAHC, n = 113; HITS-p, n = 90; and HITS-c, n = 22), HCV genotype prevalence was: G1a: 38% (n = 86), G1b: 5% (n = 12), G2a: 1% (n = 2), G2b: 5% (n = 11), G3a: 48% (n = 109), G6a: 1% (n = 2) and G6l 1% (n = 3). Of participants included in phylogenetic trees, 22% of participants were in a pair/cluster (G1a-35%, 30/85, mean maximum genetic distance = 0.031; G3a-11%, 12/106, mean maximum genetic distance = 0.021; other genotypes-21%, 6/28, mean maximum genetic distance = 0.023). Among HCV/HIV co-infected participants, 50% (18/36) were in a pair/cluster, compared to 16% (30/183) with HCV mono-infection (P =