Hepatitis C subtyping assay failure in UK patients born in sub-Saharan Africa: Implications for global treatment and elimination.
Hepatitis C subtyping assay failure in UK patients born in sub-Saharan Africa: Implications for global treatment and elimination.
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DOI：
10.1002/jmv.28178
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发表时间：
2023-01
影响因子：
12.7
通讯作者：
McClure, C. Patrick
中科院分区：
文献类型：
--
作者：
Adeboyejo, Kazeem;King, Barnabas J.;Tsoleridis, Theocharis;Tarr, Alexander W.;McLauchlan, John;Irving, William L.;Ball, Jonathan K.;McClure, C. Patrick
新开发的直接作用抗病毒药物使慢性丙型肝炎病毒(丙型肝炎病毒)的治疗发生了革命性变化，在一些队列中治愈率高达98%。尽管基因组测序已经证明，某些亚型的丙型肝炎病毒天然存在耐药相关的替换(RAS)，但这些通常被忽视为“罕见”。此外，商业亚型分析和相关的流行病学结果偏向于西方人群，如果没有重要的基础设施和培训支持，全基因组测序可能会出现问题。因此，我们的目标是开发一种简单、可靠和准确的丙型肝炎病毒亚型分型管道，以优化和简化不同RAS亚型的分子检测和基于序列的分型。用一组针对NS5B和NS5A基因组区域的新型单轮聚合酶链式反应(PCR)方法对146名可能感染源来自撒哈拉以南非洲(SSA)的人的丙型肝炎病毒血清进行了研究。通过成对距离分析确定病毒亚型分配，并将其与诊断实验室分配和免费使用的在线分型工具进行比较。分别从出生在19个不同国家的SSA但在英国诊所就诊的131至135名丙型肝炎阳性患者中分别获得了NS5A和NS5B的部分序列。我们确定，常规的临床诊断方法错误地对59.0%的样本进行了亚型分析，还有6.8%的样本进行了错误的基因分型。在五个常用的在线工具中，Gen2Pheno在确定亚型方面表现最有效，与两两距离分析一致。这项研究提供了一种简单、低成本的途径来准确地对SSA进行分型，指导区域治疗选择，并协助全球监测和消除行动。
The newly developed direct‐acting antivirals have revolutionized the treatment of chronic hepatitis C virus (HCV), with cure rates as high as 98% in some cohorts. Although genome sequencing has demonstrated that some subtypes of HCV naturally harbor drug resistance associated substitutions (RAS), these are often overlooked as “rarities.” Furthermore, commercial subtyping assays and associated epidemiological findings are skewed towards Western cohorts and whole‐genome sequencing can be problematic to deploy without significant infrastructure and training support. We thus aimed to develop a simple, robust and accurate HCV subtyping pipeline, to optimize and streamline molecular detection and sequence‐based typing of diverse RAS‐containing subtypes. HCV serum derived from 146 individuals, whose likely source of infection was from sub‐Saharan Africa (SSA) was investigated with a novel panel of single round polymerase chain reaction (PCR) assays targeting NS5B and NS5A genomic regions. Virus subtype assignments were determined by pairwise‐distance analysis and compared to both diagnostic laboratory assignments and free‐to‐use online typing tools. Partial NS5A and NS5B sequences were respectively obtained from 131 to 135 HCV‐positive patients born in 19 different countries from SSA but attending clinics in the UK. We determined that routine clinical diagnostic methods incorrectly subtyped 59.0% of samples, with a further 6.8% incorrectly genotyped. Of five commonly used online tools, Geno2Pheno performed most effectively in determining a subtype in agreement with pairwise distance analysis. This study provides a simple low‐cost pathway to accurately subtype in SSA, guide regional therapeutic choice and assist global surveillance and elimination initiatives.
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DOI：
10.1099/vir.0.047506-0
发表时间：
2013-01
期刊：
The Journal of general virology
影响因子：
--
作者：
Wang H;Yuan Z;Barnes E;Yuan M;Li C;Fu Y;Xia X;Li G;Newton PN;Vongsouvath M;Klenerman P;Pybus OG;Murphy D;Abe K;Lu L
通讯作者：
Lu L
在撒哈拉以南非洲检测到的高度多样化的丙型肝炎菌株对直接作用抗病毒治疗的敏感性未知。
DOI：
10.1002/hep.30342
发表时间：
2019-04
期刊：
Hepatology (Baltimore, Md.)
影响因子：
--
作者：
Davis C;Mgomella GS;da Silva Filipe A;Frost EH;Giroux G;Hughes J;Hogan C;Kaleebu P;Asiki G;McLauchlan J;Niebel M;Ocama P;Pomila C;Pybus OG;Pépin J;Simmonds P;Singer JB;Sreenu VB;Wekesa C;Young EH;Murphy DG;Sandhu M;Thomson EC
通讯作者：
Thomson EC
影响因子：
12.7
作者：
Gededzha, Maemu P.;Selabe, Selokela G.;Mphahlele, M. Jeffery
通讯作者：
Mphahlele, M. Jeffery
影响因子：
3.8
作者：
Morice, Y;Roulot, D;Dény, P
通讯作者：
Dény, P
影响因子：
7.6
作者：
Chen, Qian;Perales, Celia;Quer, Josep
通讯作者：
Quer, Josep