A SARS-CoV-2 mutant from B.1.258 lineage with ∆H69/∆V70 deletion in the Spike protein circulating in Central Europe in the fall 2020.
A SARS-CoV-2 mutant from B.1.258 lineage with ∆H69/∆V70 deletion in the Spike protein circulating in Central Europe in the fall 2020.
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DOI：
10.1007/s11262-021-01866-5
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发表时间：
2021-12
期刊：
影响因子：
1.6
通讯作者：
Vinař T
中科院分区：
文献类型：
--
作者：
Brejová B;Boršová K;Hodorová V;Čabanová V;Reizigová L;Paul ED;Čekan P;Klempa B;Nosek J;Vinař T
SARS-CoV-2突变体在刺突蛋白的氨基端结构域中携带有H69/H70缺失，这些突变体独立地出现在至少六个病毒谱系中（即B.1.1.7，B.1.1.298，B.1.160，B.1.177，B.1.258，B.1.375）。我们分析了2020年11月至12月期间从斯洛伐克多个地区收集的SARS-CoV-2样本，这些样本被认为含有B.1.1.7变异体，因为这种缺失导致了RT-qPCR检测中Spike基因靶标的缺失。对这些样本的测序显示，尽管在某些情况下，这些样本确实被确认为B.1.1.7，但相当一部分样本含有另一种携带突变体的B.1.258亚型H69/HPV 70，这种突变体自2020年8月以来一直在中欧流行，早在B.1.1.7进口之前。系统发育分析表明，B.1.258的早期亚系在刺突蛋白的受体结合结构域（RBD）中获得了N439 K取代，后来在刺突蛋白的N端结构域（NTD）中也缺失了N439 H 69/N439 V 70。此变体在捷克共和国及斯洛伐克等多个欧洲国家尤其常见，但已于二零二一年初迅速被B.1.1.7取代。在线版本包含补充材料，可通过10.1007/s11262-021-01866-5获得。
SARS-CoV-2 mutants carrying the ∆H69/∆V70 deletion in the amino-terminal domain of the Spike protein emerged independently in at least six lineages of the virus (namely, B.1.1.7, B.1.1.298, B.1.160, B.1.177, B.1.258, B.1.375). We analyzed SARS-CoV-2 samples collected from various regions of Slovakia between November and December 2020 that were presumed to contain B.1.1.7 variant due to drop-out of the Spike gene target in an RT-qPCR test caused by this deletion. Sequencing of these samples revealed that although in some cases the samples were indeed confirmed as B.1.1.7, a substantial fraction of samples contained another ∆H69/∆V70 carrying mutant belonging to the lineage B.1.258, which has been circulating in Central Europe since August 2020, long before the import of B.1.1.7. Phylogenetic analysis shows that the early sublineage of B.1.258 acquired the N439K substitution in the receptor-binding domain (RBD) of the Spike protein and, later on, also the deletion ∆H69/∆V70 in the Spike N-terminal domain (NTD). This variant was particularly common in several European countries including the Czech Republic and Slovakia but has been quickly replaced by B.1.1.7 early in 2021. The online version contains supplementary material available at 10.1007/s11262-021-01866-5.
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影响因子：
64.5
作者：
Thomson EC;Rosen LE;Shepherd JG;Spreafico R;da Silva Filipe A;Wojcechowskyj JA;Davis C;Piccoli L;Pascall DJ;Dillen J;Lytras S;Czudnochowski N;Shah R;Meury M;Jesudason N;De Marco A;Li K;Bassi J;O'Toole A;Pinto D;Colquhoun RM;Culap K;Jackson B;Zatta F;Rambaut A;Jaconi S;Sreenu VB;Nix J;Zhang I;Jarrett RF;Glass WG;Beltramello M;Nomikou K;Pizzuto M;Tong L;Cameroni E;Croll TI;Johnson N;Di Iulio J;Wickenhagen A;Ceschi A;Harbison AM;Mair D;Ferrari P;Smollett K;Sallusto F;Carmichael S;Garzoni C;Nichols J;Galli M;Hughes J;Riva A;Ho A;Schiuma M;Semple MG;Openshaw PJM;Fadda E;Baillie JK;Chodera JD;ISARIC4C Investigators;COVID-19 Genomics UK (COG-UK) Consortium;Rihn SJ;Lycett SJ;Virgin HW;Telenti A;Corti D;Robertson DL;Snell G
通讯作者：
Snell G
DOI：
10.1126/science.abf6950
发表时间：
2021-03-12
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
McCarthy KR;Rennick LJ;Nambulli S;Robinson-McCarthy LR;Bain WG;Haidar G;Duprex WP
通讯作者：
Duprex WP
影响因子：
5.8
作者：
Hadfield, James;Megill, Colin;Neher, Richard A.
通讯作者：
Neher, Richard A.
影响因子：
4.9
作者：
Elbe, Stefan;Buckland-Merrett, Gemma
通讯作者：
Buckland-Merrett, Gemma
影响因子：
28.3
作者：
Rambaut A;Holmes EC;O'Toole Á;Hill V;McCrone JT;Ruis C;du Plessis L;Pybus OG
通讯作者：
Pybus OG