Rapid screening for SARS-CoV-2 VOC-Alpha (202012/01, B.1.1.7) using the Allplex™ SARS-CoV-2/FluA/FluB/RSV Assay.
Rapid screening for SARS-CoV-2 VOC-Alpha (202012/01, B.1.1.7) using the Allplex™ SARS-CoV-2/FluA/FluB/RSV Assay.
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DOI：
10.1016/j.ijid.2021.10.005
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发表时间：
2021-12
期刊：
影响因子：
--
通讯作者：
Rossolini GM
中科院分区：
文献类型：
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作者：
Giovacchini N;Coppi M;Aiezza N;Baccani I;Malentacchi F;Pollini S;Antonelli A;Rossolini GM
SARS-CoV-2变异体的出现增加了传播性，并可能导致免疫逃逸，因此需要进行流行病学监测。VOC中存在的基因组改变可影响用于常规诊断目的的RT-qPCR测定的结果，从而产生可用于快速筛选变体的特殊谱。本研究报告了Allplex™ SARS-CoV-2/FluA/FluB/RSV检测试剂盒和VOC-α（202012/01，谱系B.1.1.7，也称为VOC-UK）观察到的特殊特征，这是第一个鉴定的SARS-CoV-2 VOC。通过两种RT-qPCR测定法分析样品：Allplex™ SARS-CoV-2/FluA/FluB/RSV测定法（ASFR，Seegene Technologies Inc;首尔，韩国）和TaqPath COVID-19 RT-PCR（Thermo Fisher Scientific，美国）。SARS-CoV-2变体的定义通过相关S基因区域的桑格测序进行，在某些情况下，通过在MiniION（Oxford Nanopore Technologies，Oxford，UK）或Illumina MiSeq平台（San Diego，加州，USA）上使用ARTIC-nCoV工作流程进行全基因组测序（WGS）。在173例SARS-CoV-2阳性标本中，所有B.1.1.7谱系（N=71）的标本显示N和S基因之间的平均Cq差异为+11 2（范围，+8/+15）。其他标本，包括几种不同的谱系（分析区域的野生型，N=22; Gamma，N=63; Delta，N=9; B.1.258Δ，N=3; B.1.160，N=3; B.1.177.7，N=1; B.1.1.420，N=1），均未表现出Cq值的相似差异。当使用Allplex™ SARS-CoV-2/FluA/FluB/RSV检测试剂时，延迟N基因阳性的特殊模式可以构成VOC-α筛查的方便方法，同时进行病毒检测。
The emergence of SARS-CoV-2 variants of concern (VOCs) for increased transmissibility and being potentially capable of immune-escape mandates for epidemiological surveillance. Genomic alterations present in VOCs can affect the results of RT-qPCR assays for routine diagnostic purposes, leading to peculiar profiles that can be used for rapid screening of variants. This study reports a peculiar profile observed with the Allplex™ SARS-CoV-2/FluA/FluB/RSV assay and VOC-Alpha (202012/01, lineage B.1.1.7, also named VOC-UK), which was the first identified SARS-CoV-2 VOC. Samples were analyzed by two RT-qPCR assays: the Allplex™ SARS-CoV-2/FluA/FluB/RSV assay (ASFR, Seegene Technologies Inc; Seoul, South Korea) and the TaqPath COVID-19 RT-PCR (Thermo Fisher Scientific, USA). Definition of the SARS-CoV-2 variant was carried out by Sanger sequencing of the relevant S-gene regions and, in some cases, by whole genome sequencing (WGS) using the ARTIC-nCoV workflow on a MiniION (Oxford Nanopore Technologies, Oxford, UK) or a Illumina MiSeq platform (San Diego, California, USA). Of the 173 SARS-CoV-2-positive specimens, all those of lineage B.1.1.7 (N=71) showed an average Cq difference between the N and S genes of +11±2 (range, +8/+15). None of the other specimens, including several different lineages (Wild-type for the analyzed regions, N=22; Gamma, N=63; Delta, N=9; B.1.258Δ, N=3; B.1.160, N=3; B.1.177.7, N=1; B.1.1.420, N=1), exhibited a similar difference in Cq values. The peculiar pattern of delayed N gene positivity could constitute a convenient method for VOC-Alpha screening, simultaneous to viral detection, when using the Allplex™ SARS-CoV-2/FluA/FluB/RSV assay.
影响因子：
1.6
作者：
Brejová B;Boršová K;Hodorová V;Čabanová V;Reizigová L;Paul ED;Čekan P;Klempa B;Nosek J;Vinař T
通讯作者：
Vinař T
影响因子：
6.4
作者：
Kidd, Michael;Richter, Alex;McNally, Alan
通讯作者：
McNally, Alan
DOI：
10.2807/1560-7917.es.2020.26.1.2002106
发表时间：
2021-01
期刊：
Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin
影响因子：
--
作者：
Leung K;Shum MH;Leung GM;Lam TT;Wu JT
通讯作者：
Wu JT