Longitudinal Phylogenetic Surveillance Identifies Distinct Patterns of Cluster Dynamics
Longitudinal Phylogenetic Surveillance Identifies Distinct Patterns of Cluster Dynamics
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DOI：
10.1097/qai.0b013e3181e8c7b0
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发表时间：
2010-09-01
影响因子：
3.6
通讯作者：
Brooks, James I.
中科院分区：
文献类型：
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作者：
Ragonnet-Cronin, Manon;Ofner-Agostini, Marianna;Brooks, James I.
目的：通过应用简单、易于使用的分子流行病学工具，我们旨在利用纵向群体水平耐药基因型数据来解决最能预测簇生长模式的系统发育关系。方法：对 2002 年至 2005 年间在不列颠哥伦比亚省收集的 971 例从未用药、首次 HIV 阳性受试者的样本进行分析。对 pol 基因的 1240bp 片段进行扩增和测序，并使用推断的 B 亚型序列之间的关系进行测序。邻接分析。系统地识别了组内平均距离为 80% 的明显感染集群。然后重新分析整个 2002-2005 年数据集，以评估随后的感染与 2002 年确定的感染之间的关系。BED 测试用于识别最近的感染（
Objective: Through the application of simple, accessible, molecular epidemiology tools, we aimed to resolve the phylogenetic relationships that best predicted patterns of cluster growth using longitudinal population level drug resistance genotype data.Methods: Analysis was performed on 971 specimens from drug naive, first time HIV positive subjects collected in British Columbia between 2002 and 2005. A 1240bp fragment of the pol gene was amplified and sequenced with relationships among subtype B sequences inferred using Neighbour-Joining analysis. Apparent clusters of infections having both a mean within group distance 80% were systematically identified. The entire 2002-2005 dataset was then re-analyze to evaluate the relationship of subsequent infections to those identified in 2002. BED testing was used to identify recent infections (